Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 96 of 171
Found at i:31219777 original size:18 final size:19
Alignment explanation
Indices: 31219742--31219780 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
31219732 AATAAATATA
31219742 AATACAATTTAAATTTAAT
1 AATACAATTTAAATTTAAT
31219761 AATA-AATTGTAAA-TTAAT
1 AATACAATT-TAAATTTAAT
31219779 AA
1 AA
31219781 AAAGAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AATACAATTTAAATTTAAT
Found at i:31221193 original size:188 final size:187
Alignment explanation
Indices: 31220876--31221252 Score: 682
Period size: 188 Copynumber: 2.0 Consensus size: 187
31220866 TATTGGTCGC
*
31220876 ATCATTAGTATACAATCGTCGATAGAAAGAAACTACTTCACTTTTGATTCTATCCTCCTCAAAAC
1 ATCATTAGTATACAATCGACGATAGAAAGAAACTACTTCACTTTTGATTCTATCCTCCTCAAAAC
*
31220941 ACCATGACCTATCATCCATCTTCAATGAATTAATCTAATTAGCCCGTTTCCTTCTACTCCCTTGA
66 ACCATGACCCATCATCCATCTTCAATGAATTAATCTAATTAGCCCGTTTCCTTCTACTCCCTTGA
*
31221006 CAGTAAAAATACTTAGTTTTTTTATCTCCAAGCGAAAGCCAACCACTTCATGATTTTT
131 CAATAAAAATACTTAG-TTTTTTATCTCCAAGCGAAAGCCAACCACTTCATGATTTTT
*
31221064 ATCATTAGTATACAATCGACGATAGAAAGAAACTACTTCACTTTTGATTCTATCCTCTTCAAAAC
1 ATCATTAGTATACAATCGACGATAGAAAGAAACTACTTCACTTTTGATTCTATCCTCCTCAAAAC
*
31221129 ACCATGACCCGTCATCCATCTTCAATGAATTAATCTAATTAGCCCGTTTCCTTCTACTCCCTTGA
66 ACCATGACCCATCATCCATCTTCAATGAATTAATCTAATTAGCCCGTTTCCTTCTACTCCCTTGA
* *
31221194 CAATAAAAATACTTAGTTTTTTATGTCCAAGCGAAAGCCAACCACTTCGTGATTTTT
131 CAATAAAAATACTTAGTTTTTTATCTCCAAGCGAAAGCCAACCACTTCATGATTTTT
31221251 AT
1 AT
31221253 TCCAAAGGAG
Statistics
Matches: 182, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
187 41 0.23
188 141 0.77
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.34
Consensus pattern (187 bp):
ATCATTAGTATACAATCGACGATAGAAAGAAACTACTTCACTTTTGATTCTATCCTCCTCAAAAC
ACCATGACCCATCATCCATCTTCAATGAATTAATCTAATTAGCCCGTTTCCTTCTACTCCCTTGA
CAATAAAAATACTTAGTTTTTTATCTCCAAGCGAAAGCCAACCACTTCATGATTTTT
Found at i:31226224 original size:12 final size:12
Alignment explanation
Indices: 31226192--31226240 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
31226182 TCATTAATAA
*
31226192 ATAAACGAG-TC
1 ATAAACGAGCTT
31226203 ATAAACGAGCTT
1 ATAAACGAGCTT
*
31226215 ATAAATGAGCTT
1 ATAAACGAGCTT
* *
31226227 TTAAACAAGCTT
1 ATAAACGAGCTT
31226239 AT
1 AT
31226241 TTGTGAACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:31227574 original size:22 final size:22
Alignment explanation
Indices: 31227530--31227574 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
31227520 TTGAACCCCG
* * *
31227530 AATCTTAAACTTTAAACCCTAA
1 AATCCTAAACCTTAAACCATAA
*
31227552 AATCCTAAACCTTACACCATAA
1 AATCCTAAACCTTAAACCATAA
31227574 A
1 A
31227575 CCCTAAAACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (22 bp):
AATCCTAAACCTTAAACCATAA
Found at i:31228238 original size:23 final size:23
Alignment explanation
Indices: 31228212--31228281 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
31228202 TTTATTTAAC
31228212 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
* * *
31228235 TTAAACGAATATGTTCATGAACA
1 TTAATCGAACATGTTCACGAACA
*
31228258 TATAATTGAACATGTTCACGAACA
1 T-TAATCGAACATGTTCACGAACA
31228282 ATGTTAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 21 0.54
24 18 0.46
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:31229714 original size:21 final size:21
Alignment explanation
Indices: 31229659--31229734 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
31229649 AAAAGTAACA
31229659 AAAACAACAACAAAAGCAGCACC
1 AAAACAACAA-AAAA-CAGCACC
* * *
31229682 AAAATAATAAAAAACAGCATC
1 AAAACAACAAAAAACAGCACC
* * *
31229703 AAAACAGCAAAAAATAGTACC
1 AAAACAACAAAAAACAGCACC
31229724 AAAACAACAAA
1 AAAACAACAAA
31229735 CAAAACAACA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 31 0.72
22 4 0.09
23 8 0.19
ACGTcount: A:0.66, C:0.21, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAACAACAAAAAACAGCACC
Found at i:31229738 original size:12 final size:12
Alignment explanation
Indices: 31229723--31229752 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
31229713 AAAATAGTAC
31229723 CAAAACAACAAA
1 CAAAACAACAAA
31229735 CAAAACAACAAA
1 CAAAACAACAAA
31229747 -AAAACA
1 CAAAACA
31229753 CACCAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAACAACAAA
Found at i:31242177 original size:314 final size:314
Alignment explanation
Indices: 31241608--31242233 Score: 1243
Period size: 314 Copynumber: 2.0 Consensus size: 314
31241598 AGACAGTCCT
31241608 GCATCCTGTGCAAACCACAACATAAAAAAGCAATTCTCTCTGACCCTGTTAGCTTCGACAGAACG
1 GCATCCTGTGCAAACCACAACATAAAAAAGCAATTCTCTCTGACCCTGTTAGCTTCGACAGAACG
31241673 CACACCAAGCATAAAAATCAAAGGTTAAATTATAATATTAGTTCTTGTACTTTACAAAAGTTATG
66 CACACCAAGCATAAAAATCAAAGGTTAAATTATAATATTAGTTCTTGTACTTTACAAAAGTTATG
31241738 GATTTAATTCATGTATTGGTTAGTTCTAGTCCCTTAGCTAGACAAATTTTTAAATTTTAGTCCTC
131 GATTTAATTCATGTATTGGTTAGTTCTAGTCCCTTAGCTAGACAAATTTTTAAATTTTAGTCCTC
31241803 ACCAAATAATAACTATTAATTAGATGAAGTTTCACTATTTCCAAAATTTGATGCAACAAATATAT
196 ACCAAATAATAACTATTAATTAGATGAAGTTTCACTATTTCCAAAATTTGATGCAACAAATATAT
31241868 TATCATCTGTGTAATGCCATGTTAACTTGTTATTTCCATATATTACTTACTACC
261 TATCATCTGTGTAATGCCATGTTAACTTGTTATTTCCATATATTACTTACTACC
*
31241922 GCATCCTGTGCAAACCACAACATAAAAAAGCAATTCTCTTTGACCCTGTTAGCTTCGACAGAACG
1 GCATCCTGTGCAAACCACAACATAAAAAAGCAATTCTCTCTGACCCTGTTAGCTTCGACAGAACG
31241987 CACACCAAGCATAAAAATCAAAGGTTAAATTATAATATTAGTTCTTGTACTTTACAAAAGTTATG
66 CACACCAAGCATAAAAATCAAAGGTTAAATTATAATATTAGTTCTTGTACTTTACAAAAGTTATG
31242052 GATTTAATTCATGTATTGGTTAGTTCTAGTCCCTTAGCTAGACAAATTTTTAAATTTTAGTCCTC
131 GATTTAATTCATGTATTGGTTAGTTCTAGTCCCTTAGCTAGACAAATTTTTAAATTTTAGTCCTC
31242117 ACCAAATAATAACTATTAATTAGATGAAGTTTCACTATTTCCAAAATTTGATGCAACAAATATAT
196 ACCAAATAATAACTATTAATTAGATGAAGTTTCACTATTTCCAAAATTTGATGCAACAAATATAT
31242182 TATCATCTGTGTAATGCCATGTTAACTTGTTATTTCCATATATTACTTACTA
261 TATCATCTGTGTAATGCCATGTTAACTTGTTATTTCCATATATTACTTACTA
31242234 AAAATCTAGT
Statistics
Matches: 311, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
314 311 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (314 bp):
GCATCCTGTGCAAACCACAACATAAAAAAGCAATTCTCTCTGACCCTGTTAGCTTCGACAGAACG
CACACCAAGCATAAAAATCAAAGGTTAAATTATAATATTAGTTCTTGTACTTTACAAAAGTTATG
GATTTAATTCATGTATTGGTTAGTTCTAGTCCCTTAGCTAGACAAATTTTTAAATTTTAGTCCTC
ACCAAATAATAACTATTAATTAGATGAAGTTTCACTATTTCCAAAATTTGATGCAACAAATATAT
TATCATCTGTGTAATGCCATGTTAACTTGTTATTTCCATATATTACTTACTACC
Found at i:31244653 original size:59 final size:59
Alignment explanation
Indices: 31244561--31244675 Score: 203
Period size: 59 Copynumber: 1.9 Consensus size: 59
31244551 AAGGAACACA
* *
31244561 TTTATAGATGTTTATGGTTATTGGGGATGAATTTAACCGTTGCAAGTATTAATTTCACG
1 TTTATAGATGTTTATGGTCATTGGGAATGAATTTAACCGTTGCAAGTATTAATTTCACG
*
31244620 TTTATAGATGTTTATGGTCATTGGGAATGAATTTAGCCGTTGCAAGTATTAATTTC
1 TTTATAGATGTTTATGGTCATTGGGAATGAATTTAACCGTTGCAAGTATTAATTTC
31244676 GAGCTTAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.43
Consensus pattern (59 bp):
TTTATAGATGTTTATGGTCATTGGGAATGAATTTAACCGTTGCAAGTATTAATTTCACG
Found at i:31244739 original size:12 final size:12
Alignment explanation
Indices: 31244722--31244748 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31244712 ACTTGAAAAT
31244722 ATGTCTCGAGAC
1 ATGTCTCGAGAC
31244734 ATGTCTCGAGAC
1 ATGTCTCGAGAC
31244746 ATG
1 ATG
31244749 GCTGACAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (12 bp):
ATGTCTCGAGAC
Found at i:31248469 original size:30 final size:30
Alignment explanation
Indices: 31248413--31248469 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
31248403 ACACGGCTTA
*
31248413 CACACGGGCAACCCACACTGGTATGTGGTG
1 CACACGGGCAACCCACACTGGCATGTGGTG
31248443 CACACGGGCAACCCACAC-GAGCATGTG
1 CACACGGGCAACCCACACTG-GCATGTG
31248470 TCTTGAGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.12
Consensus pattern (30 bp):
CACACGGGCAACCCACACTGGCATGTGGTG
Found at i:31251937 original size:14 final size:15
Alignment explanation
Indices: 31251915--31251947 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
31251905 GGAATGATAA
31251915 TAAATTTTAATTAAT
1 TAAATTTTAATTAAT
31251930 TAAA-TTTAATTAAT
1 TAAATTTTAATTAAT
31251944 TAAA
1 TAAA
31251948 AATTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAATTTTAATTAAT
Found at i:31251944 original size:18 final size:18
Alignment explanation
Indices: 31251921--31251963 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
31251911 ATAATAAATT
31251921 TTAATTAATTAAATTTAA
1 TTAATTAATTAAATTTAA
31251939 TTAATTAA--AAATTTAA
1 TTAATTAATTAAATTTAA
31251955 --AATTAATTA
1 TTAATTAATTA
31251964 CAACTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 6 0.26
16 9 0.39
18 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAATTAAATTTAA
Found at i:31254419 original size:21 final size:21
Alignment explanation
Indices: 31254388--31254439 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
31254378 GTTTTGTTGT
*
31254388 AATTA-GGTTTAGGGTTTTAA
1 AATTAGGGTTTAAGGTTTTAA
*
31254408 AATTAGGGTTTAAGTTTTTAA
1 AATTAGGGTTTAAGGTTTTAA
31254429 AATTAGGGTTT
1 AATTAGGGTTT
31254440 TAGTATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (21 bp):
AATTAGGGTTTAAGGTTTTAA
Found at i:31254448 original size:21 final size:21
Alignment explanation
Indices: 31254403--31254448 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
31254393 GGTTTAGGGT
*
31254403 TTTAAAATTAGGGTTTAAGTT
1 TTTAAAATTAGGGTTTAAGTA
*
31254424 TTTAAAATTAGGGTTTTAGTA
1 TTTAAAATTAGGGTTTAAGTA
31254445 TTTA
1 TTTA
31254449 TTTTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (21 bp):
TTTAAAATTAGGGTTTAAGTA
Found at i:31256133 original size:13 final size:13
Alignment explanation
Indices: 31256098--31256144 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
31256088 GTTTCACCTA
31256098 TTTAA-ATAAAAT
1 TTTAATATAAAAT
*
31256110 TTTAACATAAAAT
1 TTTAATATAAAAT
*
31256123 TTTAATTTAAATAT
1 TTTAATATAAA-AT
31256137 ATTTAATA
1 -TTTAATA
31256145 ATGTAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 5 0.17
13 16 0.55
14 2 0.07
15 6 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAATATAAAAT
Found at i:31256943 original size:12 final size:12
Alignment explanation
Indices: 31256921--31256957 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
31256911 TAATTAAATT
31256921 ATAAA-AATAAA
1 ATAAATAATAAA
31256932 ATAAATAAT-AA
1 ATAAATAATAAA
31256943 ATAATATAATAAA
1 ATAA-ATAATAAA
31256956 AT
1 AT
31256958 TAAAATTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.48
12 8 0.35
13 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAAATAATAAA
Found at i:31256963 original size:19 final size:19
Alignment explanation
Indices: 31256915--31256955 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
31256905 AAATTTTAAT
*
31256915 TAAATTATAAA-AATAAAA
1 TAAATTATAAATAATATAA
*
31256933 TAAATAATAAATAATATAA
1 TAAATTATAAATAATATAA
31256952 TAAA
1 TAAA
31256956 ATTAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAATTATAAATAATATAA
Found at i:31260632 original size:6 final size:6
Alignment explanation
Indices: 31260614--31260671 Score: 61
Period size: 6 Copynumber: 10.0 Consensus size: 6
31260604 TTAAATTGAT
31260614 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA
*
31260659 TTAAAA TTATAAA
1 TTTAAA TT-TAAA
31260672 AAAAAATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
4 6 0.14
5 2 0.05
6 31 0.70
7 5 0.11
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:31260635 original size:16 final size:17
Alignment explanation
Indices: 31260614--31260656 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
31260604 TTAAATTGAT
31260614 TTTAAATTTAT-TTAAA
1 TTTAAATTTATCTTAAA
31260630 TTTAAATTTATCTTAAA
1 TTTAAATTTATCTTAAA
31260647 TTTAAATTTA
1 TTTAAATTTA
31260657 AATTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATCTTAAA
Found at i:31260638 original size:23 final size:24
Alignment explanation
Indices: 31260612--31260660 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
31260602 GGTTAAATTG
*
31260612 ATTTTAAATT-TATTTAAATTTAA
1 ATTTTAAATTAAATTTAAATTTAA
**
31260635 A-TTTATCTTAAATTTAAATTTAA
1 ATTTTAAATTAAATTTAAATTTAA
31260658 ATT
1 ATT
31260661 AAAATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTTAAATTAAATTTAAATTTAA
Found at i:31260662 original size:17 final size:17
Alignment explanation
Indices: 31260604--31260663 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
31260594 AATTTAGAGG
* *
31260604 TTAAATTGATTTTAAAT
1 TTAAATTAAATTTAAAT
*
31260621 TT-ATTTAAATTTAAAT
1 TTAAATTAAATTTAAAT
**
31260637 TTATCTTAAATTTAAAT
1 TTAAATTAAATTTAAAT
31260654 TTAAATTAAA
1 TTAAATTAAA
31260664 ATTATAAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
16 13 0.37
17 22 0.63
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TTAAATTAAATTTAAAT
Found at i:31261468 original size:21 final size:19
Alignment explanation
Indices: 31261435--31261484 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
31261425 TGTTAGTGGT
* *
31261435 TAATAATAATAAATGTTGTGA
1 TAATATTAATAAATATT-T-A
*
31261456 TAATATTATTAAATATTTA
1 TAATATTAATAAATATTTA
31261475 TAATATTAAT
1 TAATATTAAT
31261485 TTTTTTAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.40
20 1 0.04
21 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (19 bp):
TAATATTAATAAATATTTA
Found at i:31262638 original size:29 final size:29
Alignment explanation
Indices: 31262579--31262856 Score: 165
Period size: 29 Copynumber: 9.6 Consensus size: 29
31262569 AACAGTCTAG
** *
31262579 AAATTA-CATTTTGACCCCAAAAC-TTCAA
1 AAATTACCATTTT-ACCCCTGAACTTTCCA
31262607 AAATTACCATTTTACCCCTGAACTTTCCA
1 AAATTACCATTTTACCCCTGAACTTTCCA
* * *
31262636 AAATT-CCATTTTAACCTTG-ATTTTACCAA
1 AAATTACCATTTTACCCCTGAACTTT-CC-A
*
31262665 AAATTACCATTTTACCCCCGAACTTTCCA
1 AAATTACCATTTTACCCCTGAACTTTCCA
*
31262694 AAATT-CCATTTTAACTCC-G-A-TTTCACCAA
1 AAATTACCATTTT-ACCCCTGAACTTT--CC-A
**
31262723 AAATTACCATTTTACCCCCAAACTTTCCA
1 AAATTACCATTTTACCCCTGAACTTTCCA
** *
31262752 AAATT-CCAATTTTAATCCTG-A-TTTCATCG
1 AAATTACC-ATTTTACCCCTGAACTTTC--CA
* *
31262781 AAATTGCCATTTTA-CCCTCGAACTTCCCA
1 AAATTACCATTTTACCCCT-GAACTTTCCA
31262810 AAATT-CCATTTTTAACCCC-G-A-TTTCACCA
1 AAATTACCA-TTTT-ACCCCTGAACTTT--CCA
*
31262839 AAATTACCATTTTGCCCC
1 AAATTACCATTTTACCCC
31262857 CGGGTATCCA
Statistics
Matches: 200, Mismatches: 23, Indels: 54
0.72 0.08 0.19
Matches are distributed among these distances:
26 3 0.01
27 11 0.05
28 52 0.26
29 91 0.46
30 29 0.14
31 11 0.05
32 3 0.01
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (29 bp):
AAATTACCATTTTACCCCTGAACTTTCCA
Found at i:31262672 original size:58 final size:58
Alignment explanation
Indices: 31262604--31262858 Score: 347
Period size: 58 Copynumber: 4.4 Consensus size: 58
31262594 CCCAAAACTT
* * *
31262604 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTAACCTTGATTTTAC
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCTCGATTTCAC
31262662 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAA-CTCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCT-CGATTTCAC
* *
31262720 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCAATTTTAATCCT-GATTTCAT
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCC-ATTTTAA-CCTCGATTTCAC
* * * * *
31262779 C-GAAATTGCCATTTTACCCTCGAACTTCCCAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTAACCTCGATTTCAC
*
31262837 C-AAAATTACCATTTTGCCCCCG
1 CAAAAATTACCATTTTACCCCCG
31262859 GGTATCCAAA
Statistics
Matches: 175, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
57 5 0.03
58 153 0.87
59 15 0.09
61 2 0.01
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCTCGATTTCAC
Found at i:31262891 original size:116 final size:116
Alignment explanation
Indices: 31262604--31262895 Score: 311
Period size: 116 Copynumber: 2.5 Consensus size: 116
31262594 CCCAAAACTT
** * * * ** * * *
31262604 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCC-ATTTTAACCTTGATTTTACCAAAAA
1 CAAAAATTACCATTTTACCCCCAAACTATCCAAAAGTCCAATTTCAACCCCGATTTCATC-GAAA
* *
31262668 TTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACTCCGATTTCAC
65 TTACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTAACCCCGATTTCAC
* * * * *
31262720 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCAATTTTAATCCTGATTTCATCGAAAT
1 CAAAAATTACCATTTTACCCCCAAACTATCCAAAAGTCCAATTTCAACCCCGATTTCATCGAAAT
* *
31262785 TGCCATTTTACCCTCGAACTTCCCAAAATTCCATTTTTAACCCCGATTTCAC
66 TACCATTTTACCCCCGAACTTCCCAAAATTCCA-TTTTAACCCCGATTTCAC
* *** **
31262837 C-AAAATTACCATTTTGCCCCC-GGGTATCCAAAAGTCCCGTTCTCAACCCCGATTTCATC
1 CAAAAATTACCATTTTACCCCCAAACTATCCAAAAGTCCAATT-TCAACCCCGATTTCATC
31262896 ATTCCTTCTT
Statistics
Matches: 151, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
115 13 0.09
116 104 0.69
117 34 0.23
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.33
Consensus pattern (116 bp):
CAAAAATTACCATTTTACCCCCAAACTATCCAAAAGTCCAATTTCAACCCCGATTTCATCGAAAT
TACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTAACCCCGATTTCAC
Found at i:31275102 original size:76 final size:76
Alignment explanation
Indices: 31275006--31275606 Score: 872
Period size: 76 Copynumber: 7.9 Consensus size: 76
31274996 CCGCACCAAC
*
31275006 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
31275071 GTAAGAGCAACG
66 GTAAGAGCAA-G
* *
31275083 -TCATTTCCTATCCGCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
31275147 GCAAGAGCAACG
66 GTAAGAGCAA-G
* * * *
31275159 -TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCGTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
31275223 GTAAGAGCAAC
66 GTAAGAGCAAG
* * * * *
31275234 ATCATTCCCTATCCTCTTGAAATTGAAGTAGA-TTGGATAACACGTCTTTATCTCTAAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
31275298 GTAAGAGTAAG
66 GTAAGAGCAAG
* * * *
31275309 ATCTTTTCCTATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
31275373 GTAAGAGCAAG
66 GTAAGAGCAAG
* *
31275384 AT-AGTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTAA
1 ATCA-TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGA
31275448 AGTAAGAGCAAG
65 AGTAAGAGCAAG
** *
31275460 AT-AGTTTCCCGTCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGA
1 ATCA-TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGA
31275524 AGTAAGAGCAAG
65 AGTAAGAGCAAG
* * * *
31275536 ATCATTTCATATTCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
31275601 GTAAGA
66 GTAAGA
31275607 ATTAGACGAA
Statistics
Matches: 483, Mismatches: 36, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
75 135 0.28
76 347 0.72
77 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (76 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAG
Found at i:31276797 original size:21 final size:19
Alignment explanation
Indices: 31276764--31276813 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
31276754 TGTTAGTGGT
* *
31276764 TAATAATAATAAATGTTGTGA
1 TAATATTAATAAATATT-T-A
*
31276785 TAATATTATTAAATATTTA
1 TAATATTAATAAATATTTA
31276804 TAATATTAAT
1 TAATATTAAT
31276814 TTTTTTAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.40
20 1 0.04
21 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (19 bp):
TAATATTAATAAATATTTA
Found at i:31278086 original size:58 final size:59
Alignment explanation
Indices: 31277942--31278423 Score: 683
Period size: 58 Copynumber: 8.3 Consensus size: 59
31277932 CCCAAAACTT
* * *
31277942 CAAAAGTTACCATTTTA-CCCTCGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCGC
1 CAAAAATTACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
**
31278001 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTCAC
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* *
31278059 CAAAAATTACCATTTTACCCCTGAACTTTCTAAAATTCAATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * *
31278118 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCTCGATTTTAC
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
** *
31278176 CAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA-
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
*
31278234 CAAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATTCCA-TTTTAACTCCGATTTCAC
1 CAAAAATTACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* * *
31278292 CAAAAATTACCATTTTACCCTTGAACTTTTCAAAATTCCATTTTTAACCCTGATTTCA-
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
** * * * *
31278350 CTGAAATTGCCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCCTGATTTCAC
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
31278409 C-AAAATTACCATTTT
1 CAAAAATTACCATTTT
31278424 GTCCCATGGT
Statistics
Matches: 380, Mismatches: 35, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
57 19 0.05
58 237 0.62
59 121 0.32
60 3 0.01
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:31278465 original size:116 final size:115
Alignment explanation
Indices: 31277942--31278423 Score: 625
Period size: 117 Copynumber: 4.1 Consensus size: 115
31277932 CCCAAAACTT
* * *
31277942 CAAAAGTTACCATTTTACCC-TCGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCGCCAAAA
1 CAAAAATTACCATTTTACCCAT-G-ACTTTCCAAAATTCCATTTTTAACCCCGATTTC-ACAAAA
*
31278006 ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTCAC
63 ATTACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTAACCCTGATTTCAC
* * *
31278059 CAAAAATTACCATTTTACCCCTGAACTTTCTAAAATTCAATTTTTAACCCCGATTTCACCAAAAA
1 CAAAAATTACCATTTTACCCATG-ACTTTCCAAAATTCCATTTTTAACCCCGATTTCA-CAAAAA
* *
31278124 TTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAA-CCTCGATTTTAC
64 TTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAACCCT-GATTTCAC
* *
31278176 CAAAAATTACCATTTTACCCCCA-AACTTTCTAAAATTCCATTTTTAACCCCGATTTCACAAAAA
1 CAAAAATTACCATTTTA--CCCATGACTTTCCAAAATTCCATTTTTAACCCCGATTTCACAAAAA
* *
31278240 TTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTAACTCC-GATTTCAC
64 TTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAAC-CCTGATTTCAC
* * * **
31278292 CAAAAATTACCATTTTACCCTTGAACTTTTCAAAATTCCATTTTTAACCCTGATTTCACTGAAAT
1 CAAAAATTACCATTTTACCCATG-ACTTTCCAAAATTCCATTTTTAACCCCGATTTCACAAAAAT
* * *
31278357 TGCCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAACCCTGATTTCAC
65 TACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTAACCCTGATTTCAC
31278409 C-AAAATTACCATTTT
1 CAAAAATTACCATTTT
31278424 GTCCCATGGT
Statistics
Matches: 328, Mismatches: 25, Indels: 25
0.87 0.07 0.07
Matches are distributed among these distances:
114 3 0.01
115 2 0.01
116 157 0.48
117 160 0.49
118 3 0.01
119 3 0.01
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (115 bp):
CAAAAATTACCATTTTACCCATGACTTTCCAAAATTCCATTTTTAACCCCGATTTCACAAAAATT
ACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAACCCTGATTTCAC
Found at i:31281909 original size:14 final size:15
Alignment explanation
Indices: 31281890--31281923 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
31281880 TGGAAATAAT
31281890 AAATTTCAAAA-ATA
1 AAATTTCAAAAGATA
*
31281904 AAATTTTAAAAGATA
1 AAATTTCAAAAGATA
31281919 AAATT
1 AAATT
31281924 AACTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (15 bp):
AAATTTCAAAAGATA
Found at i:31282621 original size:20 final size:21
Alignment explanation
Indices: 31282594--31282637 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
31282584 AATAAAAATA
*
31282594 AATAAAAATTATTAAATTT-TT
1 AATAAAAA-TATAAAATTTATT
31282615 AATAAAAATATAAAATTTATT
1 AATAAAAATATAAAATTTATT
31282636 AA
1 AA
31282638 AAATCAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAAAAATATAAAATTTATT
Found at i:31282688 original size:28 final size:30
Alignment explanation
Indices: 31282648--31282705 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
31282638 AAATCAGAAT
31282648 TTTTTTATAAAATTCCTAAAAAAATTATAA
1 TTTTTTATAAAATTCCTAAAAAAATTATAA
** *
31282678 TTTTTT-T-AAATTTTTATAAAAATTATAA
1 TTTTTTATAAAATTCCTAAAAAAATTATAA
31282706 AAGAATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.72
29 1 0.04
30 6 0.24
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (30 bp):
TTTTTTATAAAATTCCTAAAAAAATTATAA
Found at i:31282853 original size:10 final size:10
Alignment explanation
Indices: 31282840--31282881 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
31282830 AAAAATTAAT
31282840 AAAATAATAA
1 AAAATAATAA
31282850 AAAATAAT-A
1 AAAATAATAA
*
31282859 AAAATTATAGA
1 AAAATAATA-A
*
31282870 AAAATTATAA
1 AAAATAATAA
31282880 AA
1 AA
31282882 TGTTTCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 8 0.28
10 11 0.38
11 10 0.34
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (10 bp):
AAAATAATAA
Found at i:31282854 original size:19 final size:20
Alignment explanation
Indices: 31282830--31282882 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
31282820 GACATGTGAC
31282830 AAAAATTAATAAAATAATA-
1 AAAAATTAATAAAATAATAG
*
31282849 AAAAA-TAATAAAAATTATAG
1 AAAAATTAAT-AAAATAATAG
31282869 AAAAATT-ATAAAAT
1 AAAAATTAATAAAAT
31282883 GTTTCTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.13
19 18 0.60
20 7 0.23
21 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAATTAATAAAATAATAG
Found at i:31283362 original size:85 final size:86
Alignment explanation
Indices: 31283229--31283394 Score: 219
Period size: 85 Copynumber: 1.9 Consensus size: 86
31283219 AAAATCAGAG
* * **
31283229 GCTTAATTGTTTTATTTGAAAAAGTTTGATGGTCTTTTTGATGTATTTTAAAAATTCAAGTACTC
1 GCTTAATTGTTTTATTTGAAAAAGTTTGATGATCTTTTTAATACATTTTAAAAATTCAAGTACTC
*
31283294 AATTG-AGTGCAAAAAATAGGA
66 AA-TGAAATGCAAAAAATAGGA
* * * * *
31283315 GCTTAATTGTTTT-TTTGAATAAGTTTGATGATCTTTTTAATACATTTTGATAGTTCAAGTACTT
1 GCTTAATTGTTTTATTTGAAAAAGTTTGATGATCTTTTTAATACATTTTAAAAATTCAAGTACTC
31283379 AATGAAATGCAAAAAA
66 AATGAAATGCAAAAAA
31283395 AAAAAGAACT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
84 2 0.03
85 54 0.78
86 13 0.19
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (86 bp):
GCTTAATTGTTTTATTTGAAAAAGTTTGATGATCTTTTTAATACATTTTAAAAATTCAAGTACTC
AATGAAATGCAAAAAATAGGA
Found at i:31284120 original size:22 final size:22
Alignment explanation
Indices: 31284074--31284123 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
31284064 AAAAATTTCA
*
31284074 ATAAATA-AAAATAAAAATGAT
1 ATAAATATAAAATAAAAATAAT
31284095 -TAAATATCAAAAT-AAAATAAT
1 ATAAATAT-AAAATAAAAATAAT
31284116 ATAAATAT
1 ATAAATAT
31284124 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.24
21 7 0.28
22 12 0.48
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
ATAAATATAAAATAAAAATAAT
Found at i:31287191 original size:34 final size:34
Alignment explanation
Indices: 31287152--31287231 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 34
31287142 AAAATATAGA
*
31287152 CTTAAATTTGAAATTTTTTTGTTGATATATAGCC
1 CTTAAATTAGAAATTTTTTTGTTGATATATAGCC
* *
31287186 CTTAAA-CAGAATTTTTTTTGTTGATATATAGCC
1 CTTAAATTAGAAATTTTTTTGTTGATATATAGCC
*
31287219 CTTAAATTCGAAA
1 CTTAAATTAGAAA
31287232 AGAGGATGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (34 bp):
CTTAAATTAGAAATTTTTTTGTTGATATATAGCC
Found at i:31288364 original size:9 final size:9
Alignment explanation
Indices: 31288350--31288374 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
31288340 ATGAGATTGA
31288350 AATATTTTT
1 AATATTTTT
31288359 AATATTTTT
1 AATATTTTT
31288368 AATATTT
1 AATATTT
31288375 AATTGAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
AATATTTTT
Found at i:31294242 original size:17 final size:16
Alignment explanation
Indices: 31294217--31294259 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
31294207 ATAAAGTTTT
*
31294217 TATTCTTTTATCAACAA
1 TATTTTTTTATC-ACAA
* *
31294234 TATTTTTTTTTCAGAA
1 TATTTTTTTATCACAA
31294250 TATTTTTTTA
1 TATTTTTTTA
31294260 ACTGTAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTTTTTTATCACAA
Found at i:31299507 original size:20 final size:21
Alignment explanation
Indices: 31299482--31299520 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31299472 TGCATTTTTA
*
31299482 ACATTTT-TAATTTAGTGACT
1 ACATTTTCTAACTTAGTGACT
31299502 ACATTTTCTAACTTAGTGA
1 ACATTTTCTAACTTAGTGA
31299521 TGCTTGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (21 bp):
ACATTTTCTAACTTAGTGACT
Found at i:31300759 original size:22 final size:21
Alignment explanation
Indices: 31300719--31300761 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
31300709 TGATCTGAGG
*
31300719 AAAAATAAAAGAAATAGAATT
1 AAAAATAAAAGAAACAGAATT
31300740 AAAAATAAAAGAAAACAGAATT
1 AAAAATAAAAG-AAACAGAATT
31300762 GAAAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.16
Consensus pattern (21 bp):
AAAAATAAAAGAAACAGAATT
Found at i:31303134 original size:58 final size:58
Alignment explanation
Indices: 31303046--31303524 Score: 413
Period size: 58 Copynumber: 8.4 Consensus size: 58
31303036 AGGTTTATTG
* * * * * * *
31303046 CAAAGACATTTCTTTAATAGAGAACACCACAAATGCTTTCCTGTCCACAGTTTTACCA
1 CAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTCCTGTCCAAAGTTTTGCCA
* ** * ** *
31303104 TAAAGGCATTCCTTTAACAGAGATTTCCACAAAAGCTTTATTGTCCAGAGTTTTGCCA
1 CAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTCCTGTCCAAAGTTTTGCCA
* * * * * * *
31303162 TAAAGGCGTTACTTTAACAGAGATCGCCATAAAGGC--T--T-T-----GTTGTACCA
1 CAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTCCTGTCCAAAGTTTTGCCA
** * * * * * * *
31303210 CAAAGGTGTTCCCTTAATAGAGATCACCACAAAGGTTTTTCTGTCTAGAGTTTTGTCA
1 CAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTCCTGTCCAAAGTTTTGCCA
* * * *
31303268 CAAAGGCATTCCTTTAACATAGAT-ACCCACAGAGGCTTTCCTTTCCAAAGTTTTTCCA
1 CAAAGGCATTCCTTTAACAGAGATCA-CCACAAAGGCTTTCCTGTCCAAAGTTTTGCCA
** * * *
31303326 CAAAGGTGTTCCTTTAACATAAATCACCACAAAGGCTTTCCTTTCCAAAGTTTTGCCA
1 CAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTCCTGTCCAAAGTTTTGCCA
* * * * *
31303384 TAAAGGCATTCCTTTAATAGAGATCACCACAAAGGCTTTACTATCCAAATTTTTGCCA
1 CAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTCCTGTCCAAAGTTTTGCCA
* * * * *
31303442 CAAAGGCATTCCTTTAACAGAGATCACCATAAAGTCTTTCTTGTCTAGAGTTTTGCCA
1 CAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTCCTGTCCAAAGTTTTGCCA
* *
31303500 CAAAGACGTTCCTTTAACAGAGATC
1 CAAAGGCATTCCTTTAACAGAGATC
31303525 GTCATAAAGG
Statistics
Matches: 339, Mismatches: 70, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
48 35 0.10
50 1 0.00
52 1 0.00
53 2 0.01
54 1 0.00
56 1 0.00
57 1 0.00
58 296 0.87
59 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (58 bp):
CAAAGGCATTCCTTTAACAGAGATCACCACAAAGGCTTTCCTGTCCAAAGTTTTGCCA
Found at i:31303183 original size:30 final size:30
Alignment explanation
Indices: 31303094--31303197 Score: 81
Period size: 29 Copynumber: 3.6 Consensus size: 30
31303084 TCCTGTCCAC
* *
31303094 AGTTTTACCATAAAGGCATTCCTTTAACAG
1 AGTTTTGCCATAAAGGCATTACTTTAACAG
* * * * *
31303124 AGATTT-CCACAAAAGCTTTA-TTGT-CCAG
1 AGTTTTGCCATAAAGGCATTACTT-TAACAG
*
31303152 AGTTTTGCCATAAAGGCGTTACTTTAACAG
1 AGTTTTGCCATAAAGGCATTACTTTAACAG
* *
31303182 AG-ATCGCCATAAAGGC
1 AGTTTTGCCATAAAGGC
31303198 TTTGTTGTAC
Statistics
Matches: 57, Mismatches: 13, Indels: 9
0.72 0.16 0.11
Matches are distributed among these distances:
28 10 0.18
29 35 0.61
30 12 0.21
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (30 bp):
AGTTTTGCCATAAAGGCATTACTTTAACAG
Found at i:31303475 original size:29 final size:29
Alignment explanation
Indices: 31303266--31303475 Score: 86
Period size: 29 Copynumber: 7.2 Consensus size: 29
31303256 AGAGTTTTGT
*
31303266 CACAAAGGCATTCCTTTAACATAGAT-ACC
1 CACAAAGGCATTCCTTTAACAGAGATCA-C
* * * * * **
31303295 CACAGAGGCTTTCCTTT-CCAAAGTTTTTC
1 CACAAAGGCATTCCTTTAACAGAG-ATCAC
** * *
31303324 CACAAAGGTGTTCCTTTAACATAAATCAC
1 CACAAAGGCATTCCTTTAACAGAGATCAC
* * * * **
31303353 CACAAAGGCTTTCCTTT-CCAAAGTTTTGC
1 CACAAAGGCATTCCTTTAACAGAG-ATCAC
* *
31303382 CATAAAGGCATTCCTTTAATAGAGATCAC
1 CACAAAGGCATTCCTTTAACAGAGATCAC
* * * * * ** **
31303411 CACAAAGGCTTTACTAT-CCAAATTTTTGC
1 CACAAAGGCATTCCTTTAACAGA-GATCAC
31303440 CACAAAGGCATTCCTTTAACAGAGATCAC
1 CACAAAGGCATTCCTTTAACAGAGATCAC
*
31303469 CATAAAG
1 CACAAAG
31303476 TCTTTCTTGT
Statistics
Matches: 122, Mismatches: 52, Indels: 14
0.65 0.28 0.07
Matches are distributed among these distances:
28 9 0.07
29 104 0.85
30 9 0.07
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (29 bp):
CACAAAGGCATTCCTTTAACAGAGATCAC
Found at i:31306222 original size:30 final size:30
Alignment explanation
Indices: 31306186--31306242 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
31306176 AGTATTGTAT
31306186 TAACCTTGCGGGGTGACGTCCACTACATGA
1 TAACCTTGCGGGGTGACGTCCACTACATGA
*
31306216 TAACCTTGCGGGGTGACGTTCACTACA
1 TAACCTTGCGGGGTGACGTCCACTACA
31306243 CAATTATACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (30 bp):
TAACCTTGCGGGGTGACGTCCACTACATGA
Found at i:31307179 original size:31 final size:31
Alignment explanation
Indices: 31307146--31307203 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
31307136 ATCTCTCAAT
31307146 TTTTTAAATAATTTT-TAATGTTT-TAATATA
1 TTTTTAAATAATTTTATAAT-TTTATAATATA
*
31307176 TTTTTCAATAATTTTATAATTTTATAAT
1 TTTTTAAATAATTTTATAATTTTATAAT
31307204 TTTTATCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (31 bp):
TTTTTAAATAATTTTATAATTTTATAATATA
Found at i:31307180 original size:11 final size:10
Alignment explanation
Indices: 31307146--31307217 Score: 50
Period size: 8 Copynumber: 7.6 Consensus size: 10
31307136 ATCTCTCAAT
31307146 TTTTTAAATAA
1 TTTTT-AATAA
31307157 TTTTTAAT--
1 TTTTTAATAA
*
31307165 GTTTTAATATA
1 TTTTTAATA-A
31307176 TTTTTCAATAA
1 TTTTT-AATAA
31307187 -TTTT-ATAA
1 TTTTTAATAA
31307195 -TTTT-ATAA
1 TTTTTAATAA
*
31307203 TTTTT-ATCA
1 TTTTTAATAA
31307212 TTTTTA
1 TTTTTA
31307218 CAACGTGTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
8 19 0.37
9 12 0.23
10 7 0.13
11 10 0.19
12 4 0.08
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:31307412 original size:19 final size:19
Alignment explanation
Indices: 31307358--31307431 Score: 71
Period size: 19 Copynumber: 3.8 Consensus size: 19
31307348 TCTAAATTTG
* *
31307358 TTTTTTTATATTTTTAA-CA
1 TTTTTTTA-AATTTTAATAA
31307377 TTTTTTTACAAATTTTAATAA
1 TTTTTTT--AAATTTTAATAA
*
31307398 TTTTTTTATATTTT-ATAA
1 TTTTTTTAAATTTTAATAA
31307416 TTTTTTATAAATTTTA
1 TTTTTT-TAAATTTTA
31307432 TTGATTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
18 10 0.22
19 20 0.43
20 7 0.15
21 9 0.20
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTTTAAATTTTAATAA
Found at i:31307430 original size:11 final size:10
Alignment explanation
Indices: 31307359--31307430 Score: 51
Period size: 10 Copynumber: 7.5 Consensus size: 10
31307349 CTAAATTTGT
31307359 TTTTTTAT-A
1 TTTTTTATAA
* * *
31307368 TTTTTAACAT
1 TTTTTTATAA
*
31307378 TTTTTTACAA
1 TTTTTTATAA
* *
31307388 ATTTTAATAA
1 TTTTTTATAA
31307398 TTTTTT-T-A
1 TTTTTTATAA
*
31307406 TATTTTATAA
1 TTTTTTATAA
31307416 TTTTTTATAA
1 TTTTTTATAA
*
31307426 ATTTT
1 TTTTT
31307431 ATTGATTTTA
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
8 6 0.13
9 8 0.17
10 33 0.70
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:31307432 original size:19 final size:19
Alignment explanation
Indices: 31307378--31307432 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
31307368 TTTTTAACAT
*
31307378 TTTTTTACAAATTTTAATAA
1 TTTTTTATAAATTTT-ATAA
*
31307398 TTTTTT-TATATTTTATAA
1 TTTTTTATAAATTTTATAA
31307416 TTTTTTATAAATTTTAT
1 TTTTTTATAAATTTTAT
31307433 TGATTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.32
19 15 0.48
20 6 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTTATAAATTTTATAA
Found at i:31308430 original size:13 final size:13
Alignment explanation
Indices: 31308412--31308436 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31308402 ATATAAAATA
31308412 TTCATAAATAAAC
1 TTCATAAATAAAC
31308425 TTCATAAATAAA
1 TTCATAAATAAA
31308437 ATTTCATCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
TTCATAAATAAAC
Found at i:31310135 original size:14 final size:15
Alignment explanation
Indices: 31310118--31310148 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
31310108 AAATATGTGG
31310118 ATGAAATA-ATAGAA
1 ATGAAATACATAGAA
31310132 ATGAAATACATAGAA
1 ATGAAATACATAGAA
31310147 AT
1 AT
31310149 TTGATATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.23
Consensus pattern (15 bp):
ATGAAATACATAGAA
Found at i:31311160 original size:21 final size:21
Alignment explanation
Indices: 31311130--31311170 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31311120 GGCCCAACGA
31311130 AATAAAC-AAATAAAATAAAAT
1 AATAAACAAAAT-AAATAAAAT
*
31311151 AATAACCAAAATAAATAAAA
1 AATAAACAAAATAAATAAAA
31311171 AACCATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (21 bp):
AATAAACAAAATAAATAAAAT
Found at i:31313120 original size:19 final size:19
Alignment explanation
Indices: 31313093--31313132 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
31313083 TTTGTTTTAG
*
31313093 CTCAGAATTCGGTTTGCAC
1 CTCAAAATTCGGTTTGCAC
31313112 CTCAAAATTCGGTTTGCAC
1 CTCAAAATTCGGTTTGCAC
31313131 CT
1 CT
31313133 ACATTTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.33
Consensus pattern (19 bp):
CTCAAAATTCGGTTTGCAC
Found at i:31318153 original size:18 final size:18
Alignment explanation
Indices: 31318130--31318168 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
31318120 TATATAAATA
31318130 TATATGTATTTATCTATG
1 TATATGTATTTATCTATG
31318148 TATATGTATTTATCTATG
1 TATATGTATTTATCTATG
31318166 TAT
1 TAT
31318169 GACATAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.56
Consensus pattern (18 bp):
TATATGTATTTATCTATG
Found at i:31319448 original size:58 final size:57
Alignment explanation
Indices: 31319328--31319622 Score: 296
Period size: 58 Copynumber: 5.1 Consensus size: 57
31319318 CATATCTTGA
** * *
31319328 CCCCTAAACTT-TCCCAAATTATATTTT-CACCATCAAACTTCCAAAAATTACATTTATG
1 CCCCTAAACTTCTCAAAAATTACATTTTGC-CC-TCAAACTTTCAAAAATTACATTT-TG
* *
31319386 CCCCTAAACTTCTCAAAAATTACATTTTTGCCC-CTAAACTTTTAAAAATTGCATTTTG
1 CCCCTAAACTTCTCAAAAATTACA-TTTTGCCCTC-AAACTTTCAAAAATTACATTTTG
* * *
31319444 CCCCTAAACTTCTCAAAAATTATATTTTACCC-CTAAACTAATCAAAAATTACATTTTTG
1 CCCCTAAACTTCTCAAAAATTACATTTTGCCCTC-AAACT-TTCAAAAATTACA-TTTTG
** * * *
31319503 -CCCTCAAACTTC-CAAAAATTGTATTTTTGCCCTCGAACTTCTTAAAAATTACATTTTA
1 CCCCT-AAACTTCTCAAAAATTACA-TTTTGCCCTCAAACTT-TCAAAAATTACATTTTG
* *
31319561 CCCCTAAACTTTTCAAAAATTACATTTTGCCCTCGAACTTTCAAAAATTACATTTTTG
1 CCCCTAAACTTCTCAAAAATTACATTTTGCCCTCAAACTTTCAAAAATTACA-TTTTG
31319619 CCCC
1 CCCC
31319623 CGACCTTCCA
Statistics
Matches: 202, Mismatches: 22, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
57 25 0.12
58 95 0.47
59 74 0.37
60 7 0.03
61 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (57 bp):
CCCCTAAACTTCTCAAAAATTACATTTTGCCCTCAAACTTTCAAAAATTACATTTTG
Found at i:31319498 original size:87 final size:89
Alignment explanation
Indices: 31319360--31319622 Score: 358
Period size: 87 Copynumber: 3.0 Consensus size: 89
31319350 ATTTTCACCA
* *
31319360 TCAAACTTC-CAAAAATTACATTTATGCCCCTAAACTTCTCAAAAATTACATTTTTGCCC-CTAA
1 TCAAACTTCTCAAAAATTACATTT-TACCCCTAAACTTATCAAAAATTACATTTTTGCCCTC-AA
*
31319423 ACTTTTAAAAATTGCA-TTTTGCCCC
64 ACTTTCAAAAATTGCATTTTTGCCCC
* *
31319448 T-AAACTTCTCAAAAATTATATTTTACCCCTAAACTAATCAAAAATTACATTTTTGCCCTCAAAC
1 TCAAACTTCTCAAAAATTACATTTTACCCCTAAACTTATCAAAAATTACATTTTTGCCCTCAAAC
* *
31319512 TTCCAAAAATTGTATTTTTG-CCC
66 TTTCAAAAATTGCATTTTTGCCCC
* * * *
31319535 TCGAACTTCTTAAAAATTACATTTTACCCCTAAACTTTTCAAAAATTACA-TTTTGCCCTCGAAC
1 TCAAACTTCTCAAAAATTACATTTTACCCCTAAACTTATCAAAAATTACATTTTTGCCCTCAAAC
*
31319599 TTTCAAAAATTACATTTTTGCCCC
66 TTTCAAAAATTGCATTTTTGCCCC
31319623 CGACCTTCCA
Statistics
Matches: 154, Mismatches: 16, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
87 88 0.57
88 66 0.43
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.37
Consensus pattern (89 bp):
TCAAACTTCTCAAAAATTACATTTTACCCCTAAACTTATCAAAAATTACATTTTTGCCCTCAAAC
TTTCAAAAATTGCATTTTTGCCCC
Found at i:31319617 original size:29 final size:29
Alignment explanation
Indices: 31319329--31319621 Score: 260
Period size: 29 Copynumber: 10.1 Consensus size: 29
31319319 ATATCTTGAC
** * **
31319329 CCCT-AAACTTTCCCAAATTATATTTTCA
1 CCCTCAAACTTTCAAAAATTACATTTTTG
* * *
31319357 CCATCAAACTTCCAAAAATTACATTTATG
1 CCCTCAAACTTTCAAAAATTACATTTTTG
31319386 CCC-CTAAACTTCTCAAAAATTACATTTTTG
1 CCCTC-AAACTT-TCAAAAATTACATTTTTG
* *
31319416 CCC-CTAAACTTTTAAAAATTGCA-TTTTG
1 CCCTC-AAACTTTCAAAAATTACATTTTTG
* **
31319444 CCC-CTAAACTTCTCAAAAATTATATTTTAC
1 CCCTC-AAACTT-TCAAAAATTACATTTTTG
*
31319474 CCCT-AAACTAATCAAAAATTACATTTTTG
1 CCCTCAAACT-TTCAAAAATTACATTTTTG
* **
31319503 CCCTCAAACTTCCAAAAATTGTATTTTTG
1 CCCTCAAACTTTCAAAAATTACATTTTTG
* * **
31319532 CCCTCGAACTTCTTAAAAATTACATTTTAC
1 CCCTCAAACTT-TCAAAAATTACATTTTTG
31319562 CCCT-AAACTTTTCAAAAATTACA-TTTTG
1 CCCTCAAAC-TTTCAAAAATTACATTTTTG
*
31319590 CCCTCGAACTTTCAAAAATTACATTTTTG
1 CCCTCAAACTTTCAAAAATTACATTTTTG
31319619 CCC
1 CCC
31319622 CCGACCTTCC
Statistics
Matches: 215, Mismatches: 38, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
28 41 0.19
29 118 0.55
30 56 0.26
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (29 bp):
CCCTCAAACTTTCAAAAATTACATTTTTG
Found at i:31320134 original size:97 final size:98
Alignment explanation
Indices: 31319961--31320157 Score: 301
Period size: 97 Copynumber: 2.0 Consensus size: 98
31319951 TCCAAAATAT
* * *
31319961 TTAAAATCGAGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGC
1 TTAAAATCGAGGCAATATTCCTTTATCTCGGGTCTTGAAAATTTGTGCCTTAACTTACTAGGCAC
31320026 GATTTATCTTC-AATCTGGGATAATCGAATACCC
66 GATTTATCTTCAAATC-GGGATAATCGAATACCC
* * *
31320059 TTAAAA-CGAGGCAATGTTTCTTTATCTCTGGTCTTGAAAATTTGTGCCTTAACTTACTAGGCAC
1 TTAAAATCGAGGCAATATTCCTTTATCTCGGGTCTTGAAAATTTGTGCCTTAACTTACTAGGCAC
31320123 GACTTT-TCTTCAAATCGGGATAATCGAATACCC
66 GA-TTTATCTTCAAATCGGGATAATCGAATACCC
31320156 TT
1 TT
31320158 TTCCAAGGTT
Statistics
Matches: 91, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
97 78 0.86
98 13 0.14
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (98 bp):
TTAAAATCGAGGCAATATTCCTTTATCTCGGGTCTTGAAAATTTGTGCCTTAACTTACTAGGCAC
GATTTATCTTCAAATCGGGATAATCGAATACCC
Found at i:31331935 original size:6 final size:6
Alignment explanation
Indices: 31331920--31331979 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
31331910 TAAAATTTAT
* * *
31331920 TTTAAG TTTAAA TTTAAA TTT-TA TTTAAA TTTAAA TTT--A TTCTCAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
*
31331966 TTTAAT TTTAAA TT
1 TTTAAA TTTAAA TT
31331980 GGGTTTAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 3 0.07
5 5 0.11
6 33 0.75
7 3 0.07
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:31331940 original size:23 final size:23
Alignment explanation
Indices: 31331908--31331958 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
31331898 CAAGCCTAAT
* *
31331908 TTTAAAATTTATTTTAAGTTTAAA
1 TTTAAATTTTA-TTTAAATTTAAA
31331932 TTTAAATTTTATTTAAATTTAAA
1 TTTAAATTTTATTTAAATTTAAA
31331955 TTTA
1 TTTA
31331959 TTCTCAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTAAATTTTATTTAAATTTAAA
Found at i:31331987 original size:40 final size:40
Alignment explanation
Indices: 31331912--31331988 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
31331902 CCTAATTTTA
* **
31331912 AAATTTATTTTAAGTTTAAATTTAAATTTTATTTAAATTT
1 AAATTTATTTCAAGTTTAAATTTAAATTGGATTTAAATTT
* *
31331952 AAATTTATTCTCAA-TTTAATTTTAAATTGGGTTTAAA
1 AAATTTATT-TCAAGTTTAAATTTAAATTGGATTTAAA
31331989 AGTCCAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 28 0.90
41 3 0.10
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (40 bp):
AAATTTATTTCAAGTTTAAATTTAAATTGGATTTAAATTT
Found at i:31333753 original size:29 final size:28
Alignment explanation
Indices: 31333724--31333971 Score: 220
Period size: 29 Copynumber: 8.6 Consensus size: 28
31333714 CTCTTACACT
31333724 TTCCAAAATTACATTTTTACCCCTAAAC
1 TTCCAAAATTACATTTTTACCCCTAAAC
* *
31333752 TTCTAAAAATTACATTTTTACCCCTGAAC
1 TTC-CAAAATTACATTTTTACCCCTAAAC
* *
31333781 TTCTCAAAATTTACATATTT-CCCTTAAAC
1 TTC-CAAAA-TTACATTTTTACCCCTAAAC
*
31333810 TTCCAAACATTACATATTT-CCCCTAAAC
1 TTCCAAA-ATTACATTTTTACCCCTAAAC
* * *
31333838 TTCCAAAAATTGCATTTTTGCCTCTAAAC
1 TTCC-AAAATTACATTTTTACCCCTAAAC
* *
31333867 TTCCAAAAATAACATTTTT-CCCC-ATATC
1 TTCC-AAAATTACATTTTTACCCCTA-AAC
*
31333895 TTCCCAAAAATGACATTTTTACCCCTAAAAC
1 TT-CC-AAAATTACATTTTTACCCCT-AAAC
*
31333926 TTTCCAAAATTACATTTTAACCCC-AAAC
1 -TTCCAAAATTACATTTTTACCCCTAAAC
*
31333954 TCTCCGAAACTT-CATTTT
1 T-TCC-AAAATTACATTTT
31333972 CGACCCTGAT
Statistics
Matches: 188, Mismatches: 19, Indels: 26
0.81 0.08 0.11
Matches are distributed among these distances:
27 2 0.01
28 58 0.31
29 91 0.48
30 30 0.16
31 4 0.02
32 3 0.02
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (28 bp):
TTCCAAAATTACATTTTTACCCCTAAAC
Found at i:31333791 original size:58 final size:56
Alignment explanation
Indices: 31333724--31333943 Score: 239
Period size: 57 Copynumber: 3.8 Consensus size: 56
31333714 CTCTTACACT
*
31333724 TTCC-AAAATTACATTTTTACCCCTAAACTTCTAAAAATTACATTTTTACCCCTGAAC
1 TTCCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTT-CCCCT-AAC
* * * * *
31333781 TTCTCAAAATTTACATATTT-CCCTTAAACTTCCAAACATTACATATTTCCCCTAAAC
1 TTC-CAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTTCCCCT-AAC
* * * * *
31333838 TTCCAAAAATTGCATTTTTGCCTCTAAACTTCCAAAAATAACATTTTTCCCCATATC
1 TTCCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTTCCCC-TAAC
*
31333895 TTCCCAAAAATGACATTTTTACCCCTAAAACTTTCC-AAAATTACATTTT
1 TT-CCAAAAATTACATTTTTACCCCT-AAAC-TTCCAAAAATTACATTTT
31333944 AACCCCAAAC
Statistics
Matches: 135, Mismatches: 21, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
56 13 0.10
57 45 0.33
58 45 0.33
59 28 0.21
60 4 0.03
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (56 bp):
TTCCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTTCCCCTAAC
Found at i:31333822 original size:28 final size:28
Alignment explanation
Indices: 31333724--31333943 Score: 230
Period size: 29 Copynumber: 7.6 Consensus size: 28
31333714 CTCTTACACT
31333724 TTCC-AAAATTACATTTTTACCCCTAAAC
1 TTCCAAAAATTACATTTTT-CCCCTAAAC
* *
31333752 TTCTAAAAATTACATTTTTACCCCTGAAC
1 TTCCAAAAATTACATTTTT-CCCCTAAAC
* * *
31333781 TTCTCAAAATTTACATATTTCCCTTAAAC
1 TTC-CAAAAATTACATTTTTCCCCTAAAC
* *
31333810 TTCCAAACATTACATATTTCCCCTAAAC
1 TTCCAAAAATTACATTTTTCCCCTAAAC
* *
31333838 TTCCAAAAATTGCATTTTTGCCTCTAAAC
1 TTCCAAAAATTACATTTTT-CCCCTAAAC
* *
31333867 TTCCAAAAATAACATTTTTCCCC-ATATC
1 TTCCAAAAATTACATTTTTCCCCTA-AAC
*
31333895 TTCCCAAAAATGACATTTTTACCCCTAAAAC
1 TT-CCAAAAATTACATTTTT-CCCCT-AAAC
31333926 TTTCC-AAAATTACATTTT
1 -TTCCAAAAATTACATTTT
31333944 AACCCCAAAC
Statistics
Matches: 162, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
27 1 0.01
28 48 0.30
29 77 0.48
30 29 0.18
31 4 0.02
32 3 0.02
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (28 bp):
TTCCAAAAATTACATTTTTCCCCTAAAC
Found at i:31333835 original size:86 final size:85
Alignment explanation
Indices: 31333724--31333954 Score: 245
Period size: 86 Copynumber: 2.7 Consensus size: 85
31333714 CTCTTACACT
*
31333724 TTCCAAAATTACATTTTTACCCCTAAACTTCTAAAAATTACATTTTTACCCCTGAACTTCTCAAA
1 TTCCAAAATTACATTTTTACCCCTAAACTTCTAAAAATTACATTTTTACCCCTAAACTTC-CAAA
* * *
31333789 ATTTACATATTT-CCCTTAAAC
65 AATAACATATTTCCCCAT-AAC
* * * * *
31333810 TTCCAAACATTACATATTT-CCCCTAAACTTCCAAAAATTGCATTTTTGCCTCTAAACTTCCAAA
1 TTCCAAA-ATTACATTTTTACCCCTAAACTTCTAAAAATTACATTTTTACCCCTAAACTTCCAAA
* *
31333874 AATAACATTTTTCCCCATATC
65 AATAACATATTTCCCCATAAC
* * *
31333895 TTCCCAAAAATGACATTTTTACCCCTAAAACTT-TCCAAAATTACATTTTAACCCC-AAACT
1 TT-CC-AAAATTACATTTTTACCCCT-AAACTTCT-AAAAATTACATTTTTACCCCTAAACT
31333955 CTCCGAAACT
Statistics
Matches: 119, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
85 17 0.14
86 58 0.49
87 23 0.19
88 21 0.18
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.35
Consensus pattern (85 bp):
TTCCAAAATTACATTTTTACCCCTAAACTTCTAAAAATTACATTTTTACCCCTAAACTTCCAAAA
ATAACATATTTCCCCATAAC
Found at i:31337343 original size:13 final size:13
Alignment explanation
Indices: 31337327--31337378 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
31337317 TATTTTTTTT
31337327 AATTTGATATTTA
1 AATTTGATATTTA
*
31337340 AATTT--TTTTTA
1 AATTTGATATTTA
31337351 TCTAATTTGATATTTA
1 ---AATTTGATATTTA
31337367 AATTTGATATTT
1 AATTTGATATTT
31337379 TTTTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
11 5 0.16
13 17 0.53
14 5 0.16
16 5 0.16
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.60
Consensus pattern (13 bp):
AATTTGATATTTA
Found at i:31337348 original size:23 final size:25
Alignment explanation
Indices: 31337318--31337371 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
31337308 ACTTGAAATT
31337318 ATTTTTT-T-TAATTTGATATTTAA
1 ATTTTTTATCTAATTTGATATTTAA
31337341 ATTTTTTTTATCTAATTTGATATTTAA
1 A--TTTTTTATCTAATTTGATATTTAA
31337368 ATTT
1 ATTT
31337372 GATATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 1 0.04
25 9 0.33
26 1 0.04
27 16 0.59
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (25 bp):
ATTTTTTATCTAATTTGATATTTAA
Found at i:31337410 original size:30 final size:31
Alignment explanation
Indices: 31337318--31337416 Score: 88
Period size: 30 Copynumber: 3.4 Consensus size: 31
31337308 ACTTGAAATT
31337318 ATTTTTT-TTAATTTGATATTTAAA-TT---
1 ATTTTTTATTAATTTGATATTTAAACTTGAC
* *
31337344 -TTTTTTATCTAATTTGATATTTAAATTTGAT
1 ATTTTTTAT-TAATTTGATATTTAAACTTGAC
31337375 ATTTTTT-TTAATTT-AGTATTTAAACTTGAC
1 ATTTTTTATTAATTTGA-TATTTAAACTTGAC
* *
31337405 CTTTTTTCTTAA
1 ATTTTTTATTAA
31337417 ATTGGTATGT
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
25 6 0.10
26 1 0.02
27 16 0.26
28 2 0.03
29 1 0.02
30 24 0.39
31 5 0.08
32 6 0.10
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (31 bp):
ATTTTTTATTAATTTGATATTTAAACTTGAC
Found at i:31339678 original size:23 final size:24
Alignment explanation
Indices: 31339634--31339678 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
31339624 TCATTTTAAA
*
31339634 TTATAGAAAACTTAATAAATATGT
1 TTATACAAAACTTAATAAATATGT
*
31339658 TTATACAAAA-TTAATATATAT
1 TTATACAAAACTTAATAAATAT
31339679 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
TTATACAAAACTTAATAAATATGT
Found at i:31339789 original size:74 final size:74
Alignment explanation
Indices: 31339707--31339854 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
31339697 TGAATAGTAA
31339707 AATAAATAGTAAAATACAAATATTGAAAACAATAGAAACTTGAATTCAAAGCTTATGATTAGTGA
1 AATAAATAGTAAAATACAAATATTGAAAACAATAGAAACTTGAATTCAAAGCTTATGATTAGTGA
31339772 TTTTTTTTT
66 TTTTTTTTT
31339781 AATAAATAGTAAAATACAAATATTGAAAACAATAGAAACTTGAATTCAAAGCTTATGATTAGTGA
1 AATAAATAGTAAAATACAAATATTGAAAACAATAGAAACTTGAATTCAAAGCTTATGATTAGTGA
31339846 TTTTTTTTT
66 TTTTTTTTT
31339855 TCTATGTAAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (74 bp):
AATAAATAGTAAAATACAAATATTGAAAACAATAGAAACTTGAATTCAAAGCTTATGATTAGTGA
TTTTTTTTT
Found at i:31345375 original size:29 final size:29
Alignment explanation
Indices: 31345342--31345397 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
31345332 TTAGGGATTA
31345342 GATTAAATTAGTCTCTT-TATTATTAAATG
1 GATTAAATTAGTCT-TTATATTATTAAATG
* *
31345371 GATTAATTTAGTCTTTATATTGTTAAA
1 GATTAAATTAGTCTTTATATTATTAAA
31345398 ATAAATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (29 bp):
GATTAAATTAGTCTTTATATTATTAAATG
Found at i:31355076 original size:589 final size:591
Alignment explanation
Indices: 31348160--31355248 Score: 13238
Period size: 591 Copynumber: 12.0 Consensus size: 591
31348150 AAGGCACCAA
* * *
31348160 TTTATATAGCGGAAACAACGCTAGCCAAAAGAAGGCAAAATAGAACAAAAAGTCA-CAAAAAACT
1 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
31348224 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
66 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
*
31348289 ATGAATGAATTACAAGTGAGGGAGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
131 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
31348354 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
196 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
31348419 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
261 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
31348484 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
326 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
31348549 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
391 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
*
31348614 CCATCTAATTAATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
456 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
* *
31348679 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTATTATTTA
521 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
31348744 GTCTTT
586 GTCTTT
* * *
31348750 TTTATATAGCGGAAACAACTCTAGACAAAAGAAGGTAAAATAGAATAGAAAGCCA-CAAAAAACT
1 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
31348814 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
66 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
31348879 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
131 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
31348944 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
196 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
*
31349009 TTACATAATCAATTGCGTAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
261 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
* *
31349074 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGACCACTCATGC
326 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
* *
31349139 TTCAATCTGTCAGGCTTCTCTAACAGCTCTTTGAATCGGGCCAGTTCTTCTGGGCTAAATGATCC
391 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
31349204 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
456 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
31349269 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
521 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
31349334 GTCTTT
586 GTCTTT
*
31349340 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAATAGAAAGCCACCAAAAAACT
1 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
*
31349405 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTCATCAAAAAATACAAAACA
66 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
* *
31349470 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTACTTATAGGTGAGCTCCCCCAAAACTGACGGT
131 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
31349535 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
196 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
* * *
31349600 TTACATAATCAATTGCATAATTAAATCTACTATAATCTTATAAGATATGATTCCAAATCTTCTTA
261 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
31349665 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
326 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
31349730 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
391 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
31349795 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
456 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
*
31349860 CCGTGACATATACACTTACTTGCAACATTGACTATTCTATCAACCTTTACATCTTTTACTAGTTA
521 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
31349925 GTCTTT
586 GTCTTT
* * *
31349931 TTTATATAGCGAAAACAACTCTAGCCAAAAGAAGGCAAAATAGAATAGAAAGCCACCAAAAAAAT
1 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
31349996 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
66 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
* *
31350061 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTACTTATAGGTGAGCTCCCCCAAAACTGACGGT
131 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
31350126 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
196 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
* *
31350191 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCAAATCTTCTTA
261 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
*
31350256 GCTTAATACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
326 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
31350321 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
391 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
31350386 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
456 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
* *
31350451 CCGTGACATATACACTTACTTGCAACATTGACTATTCTATCAACCTTTCCATCTTTTACTAGTTA
521 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
31350516 GTCTTT
586 GTCTTT
*
31350522 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAATAGAAAGCCACCAAAAAACT
1 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
* * *
31350587 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTATATTACTTTTCATCAAAAAAGACAAAACA
66 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
* *
31350652 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGGTGAGCTCCCCCAAAACTGATGGT
131 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
31350717 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
196 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
* *
31350782 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCAAATCTTCTTA
261 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
*
31350847 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTAGGCCACCCATGC
326 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
31350912 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
391 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
31350977 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
456 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
* *
31351042 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAAACTTTACATCTTTTACTATTTA
521 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
31351107 GTCTTT
586 GTCTTT
* *
31351113 TTTATATAGCGGAAACAACTCTAGACAAAAGAAGGCAAAATAGAACAAAAAGCCA-CAAAAAACT
1 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
* *
31351177 ATGCATGAGAGGTTTTTGAGTAAATGCTCTAAATTGTATTACTTTTTATCATAAAATACAAAACA
66 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
* *
31351242 ATGAATAAATTACAAGTGAGGGGGAGGCTCTCTATTTCTAGTTGAGCTCCCCCAAAACTGACGGT
131 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
31351307 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
196 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
31351372 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
261 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
31351437 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
326 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
31351502 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
391 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
31351567 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
456 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
*
31351632 CCGTGACATATACACTTACTTGCAACATTGACTATTCTATCAACCTTTACATCTTTTACTAGTTA
521 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
31351697 GTCTTT
586 GTCTTT
*
31351703 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAATAGAAAGCCACCAAAAAACT
1 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
* *
31351768 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTCATCAAAAAAGACAAAACA
66 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
* *
31351833 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGGTGAGCTCCCCCAAAACTGATGGT
131 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
31351898 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
196 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
* *
31351963 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCAAATCTTCTTA
261 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
31352028 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
326 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
31352093 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
391 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
31352158 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
456 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
*
31352223 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTATTTA
521 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
31352288 GTCTTT
586 GTCTTT
* *
31352294 TTTATATAGCGGAAACAACTCTAGACAAAAGAAGGCAAAATAGAACAAAAAGCCA-CAAAAAACT
1 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
31352358 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTATATCAAAAAATACAAAAC
66 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTT-TATCAAAAAATACAAAAC
*
31352423 AATGAATGAATTGCAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGG
130 AATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGG
*
31352488 TCTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAAT-A
195 TCTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCG
31352552 ATTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTA
260 ATTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTA
31352617 AGCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATG
325 AGCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATG
31352682 CTTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATC
390 CTTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATC
31352747 CCCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGG
455 CCCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGG
* *
31352812 TCCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTATTT
520 CCCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTT
31352877 AGTCTTT
585 AGTCTTT
* *
31352884 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAATAGAAAGCCACCAAAAAAAT
1 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
*
31352949 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAATCA
66 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
*
31353014 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGGTGAGCTCCCCCAAAACTGACGGT
131 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
31353079 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
196 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
*
31353144 TTACATAATCAATTGCATAATTAAATCTAATATAATGTTATAAGATATGATTCCCAATCTTCTAA
261 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
31353209 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
326 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
31353274 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
391 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
31353339 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
456 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
*
31353404 CCGTGACATATACACTTACTTGCAACATTGACTATTCTATCAACCTTTACATCTTTTACTAGTTA
521 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
31353469 GTCTTT
586 GTCTTT
31353475 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
1 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
31353540 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
66 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
* * *
31353605 ATGAATGAATGACAATTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTACCCCAAAACTGACGGT
131 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
31353670 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
196 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
*
31353735 TTACATAATCAATTGCATAATTAAATATAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
261 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
31353800 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
326 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
31353865 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
391 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
* * *
31353930 CCATCTAATTAATAAACCTCCTTGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTTGC
456 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
31353995 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
521 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
31354060 GTCTTT
586 GTCTTT
31354066 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
1 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
31354131 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
66 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
* *
31354196 ATGAATGAATTACAAGTGAGAGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTAACGGT
131 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
* * *
31354261 CTAGATCAAGTTTCATCGACGAATGAAATTAGCTTATCCCTTTAATCATGAGATTTTACAATCGA
196 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
31354326 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
261 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
31354391 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
326 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
*
31354456 TTCAATCTGTCAGGCTTCTCCAATAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
391 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
*
31354521 CTATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
456 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
31354586 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
521 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
31354651 GTCTTT
586 GTCTTT
31354657 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCA-CAAAAAACT
1 TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
31354721 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTAT-AAAAAATACAAAACA
66 ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
* *
31354785 ATGAATGAATTTCAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAATTGACGGT
131 ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
* * * *
31354850 CTAGATCTAGTTTCATCGACGAACGAAAGTAGCTTATCCCTTGAATCATGAGATTTTGCAATCGA
196 CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
31354915 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
261 TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
**
31354980 GCTTAGTACCCATATTTTACAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
326 GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
** *
31355045 TTCAATCTGTCAGGCTTCTCCAATTGCTCTTTGAATCGAGCCAGTTCTTGTGGGCTAAATGATCC
391 TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
*
31355110 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTGGCTTTGCACCTTGGC
456 CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
*
31355175 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTATTTA
521 CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
31355240 GTCTTT
586 GTCTTT
31355246 TTT
1 TTT
31355249 CTCACTTTTA
Statistics
Matches: 6346, Mismatches: 148, Indels: 11
0.98 0.02 0.00
Matches are distributed among these distances:
589 463 0.07
590 1837 0.29
591 4046 0.64
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (591 bp):
TTTATATAGCGGAAACAACTCTAGCCAAAAGAAGGCAAAATAGAACAGAAAGCCACCAAAAAACT
ATGCATGAGAGGTTTTTGAGTAAATGCTCTCAATTGTATTACTTTTTATCAAAAAATACAAAACA
ATGAATGAATTACAAGTGAGGGGGAGGCTCTCTATTTATAGTTGAGCTCCCCCAAAACTGACGGT
CTAGATCAAGTTTCATCGACGAACGAAATTAGCCTATCCCTTGAATCATGAGATTTTACAATCGA
TTACATAATCAATTGCATAATTAAATCTAATATAATCTTATAAGATATGATTCCCAATCTTCTAA
GCTTAGTACCCATATTTGCCAAGATAGCTTATGTTGTCATATCTTCATAATTGGGCCACCCATGC
TTCAATCTGTCAGGCTTCTCCAACAGCTCTTTGAATCGGGCCAGTTCTTGTGGGCTAAATGATCC
CCATCTAATTGATAAACCTCCATGGGGTATATTTTGTGCCATGGTCACTAGCTTTGCACCTTGGC
CCGTGACATATACACTTACTTGCAACATTTACTATTCTATCAACCTTTACATCTTTTACTAGTTA
GTCTTT
Found at i:31364033 original size:21 final size:21
Alignment explanation
Indices: 31364009--31364060 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
31363999 AAGACTCGTT
31364009 TCGGTAGAAGAGACACTTGTA
1 TCGGTAGAAGAGACACTTGTA
** *
31364030 TCGGTAGAATTGTCACTTGTA
1 TCGGTAGAAGAGACACTTGTA
*
31364051 TTGGTAGAAG
1 TCGGTAGAAG
31364061 TTTGCTCTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (21 bp):
TCGGTAGAAGAGACACTTGTA
Found at i:31369154 original size:21 final size:21
Alignment explanation
Indices: 31369120--31369159 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31369110 GTAAAAAGGT
*
31369120 TTAATTAAGGTTAA-GAGTGG
1 TTAATTAAGCTTAATGAGTGG
31369140 TTAATTAAAGCTTAATGAGT
1 TTAATT-AAGCTTAATGAGT
31369160 CTTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.38
Consensus pattern (21 bp):
TTAATTAAGCTTAATGAGTGG
Found at i:31371641 original size:24 final size:24
Alignment explanation
Indices: 31371605--31371650 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
31371595 ACATTCATTC
* *
31371605 AATTCATGCATTA-GTATTCAAAAG
1 AATTCAAGAATTACGTA-TCAAAAG
31371629 AATTCAAGAATTACGTATCAAA
1 AATTCAAGAATTACGTATCAAA
31371651 TGAAAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (24 bp):
AATTCAAGAATTACGTATCAAAAG
Found at i:31371873 original size:16 final size:18
Alignment explanation
Indices: 31371847--31371879 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31371837 GCATATGCTA
31371847 AAACAAAT-AAAATGCAG
1 AAACAAATAAAAATGCAG
31371864 AAAC-AATAAAAATGCA
1 AAACAAATAAAAATGCA
31371880 ATGATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.67, C:0.12, G:0.09, T:0.12
Consensus pattern (18 bp):
AAACAAATAAAAATGCAG
Found at i:31383281 original size:21 final size:21
Alignment explanation
Indices: 31383243--31383283 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31383233 GTTTTTAGTA
*
31383243 TCGGTAGAAGTAAGACTTGTT
1 TCGGTAGAAGTAACACTTGTT
31383264 TCGGTAGAAG-AGACACTTGT
1 TCGGTAGAAGTA-ACACTTGT
31383284 ATAGGTGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (21 bp):
TCGGTAGAAGTAACACTTGTT
Found at i:31386268 original size:20 final size:20
Alignment explanation
Indices: 31386222--31386270 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
31386212 CAACCTAATG
31386222 AAATTAAAAATTAATTAAAC
1 AAATTAAAAATTAATTAAAC
31386242 AAA-TAAAAATTAA-TAAAC
1 AAATTAAAAATTAATTAAAC
31386260 AAAATTAAAAA
1 -AAATTAAAAA
31386271 AAATTGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.19
19 13 0.48
20 9 0.33
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATTAAAAATTAATTAAAC
Found at i:31405592 original size:21 final size:20
Alignment explanation
Indices: 31405548--31405599 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
31405538 AAGTGGCAGT
*
31405548 TCTATCGATACAAGTGATCC
1 TCTATCGATACAAGTCATCC
*
31405568 TCTATCGATACAAGTCTTACC
1 TCTATCGATACAAGTCAT-CC
*
31405589 TCTACCGATAC
1 TCTATCGATAC
31405600 TAAAAACTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (20 bp):
TCTATCGATACAAGTCATCC
Found at i:31421785 original size:24 final size:24
Alignment explanation
Indices: 31421755--31421800 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
31421745 TGTAAATTAG
*
31421755 GTTTTAGTTATTTC-TTTTCCTTAA
1 GTTTTAGTT-CTTCATTTTCCTTAA
31421779 GTTTTAGTTCTTCATTTTCCTT
1 GTTTTAGTTCTTCATTTTCCTT
31421801 TGGCTTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.13, C:0.15, G:0.09, T:0.63
Consensus pattern (24 bp):
GTTTTAGTTCTTCATTTTCCTTAA
Found at i:31422030 original size:15 final size:15
Alignment explanation
Indices: 31422012--31422041 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31422002 CGAAACCATA
31422012 ATTTTTGACACCACT
1 ATTTTTGACACCACT
31422027 ATTTTTGACACCACT
1 ATTTTTGACACCACT
31422042 GAAAATCGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
ATTTTTGACACCACT
Found at i:31422884 original size:24 final size:24
Alignment explanation
Indices: 31422852--31422898 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
31422842 TGTAAATTAG
31422852 GTTTTAGTTATTTATTTTCCTTAA
1 GTTTTAGTTATTTATTTTCCTTAA
*
31422876 GTTTTAGTTCTTTATTTTCCTTA
1 GTTTTAGTTATTTATTTTCCTTA
31422899 GGCTTGTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.11, G:0.09, T:0.64
Consensus pattern (24 bp):
GTTTTAGTTATTTATTTTCCTTAA
Found at i:31423927 original size:24 final size:24
Alignment explanation
Indices: 31423900--31423960 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
31423890 TTCTTTGTAA
*
31423900 ATTAGGTTTTAGTTATTTCTTGTC
1 ATTAGGTTTTAGTTATTTATTGTC
* * *
31423924 ATTAAGTTTTAGTTCTTTATTTTC
1 ATTAGGTTTTAGTTATTTATTGTC
* *
31423948 CTTAGGCTTTAGT
1 ATTAGGTTTTAGT
31423961 GTTTTGTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.18, C:0.10, G:0.15, T:0.57
Consensus pattern (24 bp):
ATTAGGTTTTAGTTATTTATTGTC
Found at i:31424043 original size:32 final size:32
Alignment explanation
Indices: 31424002--31424063 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
31423992 GTAGACGCGA
31424002 ATAAACACTGGTGGATTTCTTCCAACGATCAC
1 ATAAACACTGGTGGATTTCTTCCAACGATCAC
* *
31424034 ATAAGCACTGGTGGATTTCTTCCAATGATC
1 ATAAACACTGGTGGATTTCTTCCAACGATC
31424064 TTACTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (32 bp):
ATAAACACTGGTGGATTTCTTCCAACGATCAC
Found at i:31424782 original size:21 final size:22
Alignment explanation
Indices: 31424756--31424796 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
31424746 TTGCCTGCTA
*
31424756 TGTTGCGACATGGA-TCTTGAG
1 TGTTGCGACATCGACTCTTGAG
31424777 TGTTGCGACATCGACTCTTG
1 TGTTGCGACATCGACTCTTG
31424797 GATGCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.34
Consensus pattern (22 bp):
TGTTGCGACATCGACTCTTGAG
Found at i:31427979 original size:17 final size:19
Alignment explanation
Indices: 31427941--31427985 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
31427931 TAAATTAACA
*
31427941 AAAAATGCAATGACAGAAT
1 AAAAATGCAATGACACAAT
31427960 AAAAATGCAAT-A-ACAAT
1 AAAAATGCAATGACACAAT
*
31427977 AAAGATGCA
1 AAAAATGCA
31427986 TACAAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.50
18 1 0.04
19 11 0.46
ACGTcount: A:0.60, C:0.11, G:0.13, T:0.16
Consensus pattern (19 bp):
AAAAATGCAATGACACAAT
Found at i:31437977 original size:18 final size:18
Alignment explanation
Indices: 31437948--31437983 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
31437938 TTTTGAGAGC
31437948 ATAAACATAGAAAGATAAA
1 ATAAACATAGAAA-ATAAA
31437967 ATAAA-ATAGAAAATAAA
1 ATAAACATAGAAAATAAA
31437984 GGCAAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.17
Consensus pattern (18 bp):
ATAAACATAGAAAATAAA
Found at i:31443592 original size:4 final size:4
Alignment explanation
Indices: 31443585--31443610 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
31443575 TGAAAGAAAA
31443585 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
31443611 TTGTTAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:31449749 original size:25 final size:25
Alignment explanation
Indices: 31449702--31449749 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31449692 TAAAATATTA
* **
31449702 AATTTAAAGAAATTTTATTTTTACT
1 AATTTAAAAAAATTTTAAATTTACT
31449727 AATTTAAAAAAATTTTAAATTTA
1 AATTTAAAAAAATTTTAAATTTA
31449750 AAAGATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
AATTTAAAAAAATTTTAAATTTACT
Found at i:31450845 original size:17 final size:19
Alignment explanation
Indices: 31450823--31450857 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31450813 ATCTTTCTCT
31450823 AAACTCT-A-AACTCTTTC
1 AAACTCTCACAACTCTTTC
31450840 AAACTCTCACAACTCTTT
1 AAACTCTCACAACTCTTT
31450858 TTGTTCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (19 bp):
AAACTCTCACAACTCTTTC
Found at i:31458890 original size:32 final size:32
Alignment explanation
Indices: 31458854--31458917 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
31458844 CCGTTGTGTA
*
31458854 TAAAATCAATTTAAATAGAATCAAATAAAATC
1 TAAAATCAATTTAAATAGAAACAAATAAAATC
* * *
31458886 TAAAATCAATTTAATTGGAAACAAATCAAATC
1 TAAAATCAATTTAAATAGAAACAAATAAAATC
31458918 GAGATATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.28
Consensus pattern (32 bp):
TAAAATCAATTTAAATAGAAACAAATAAAATC
Found at i:31462992 original size:11 final size:11
Alignment explanation
Indices: 31462976--31463049 Score: 55
Period size: 11 Copynumber: 6.8 Consensus size: 11
31462966 CAAGCACGGT
31462976 AATGATATGTA
1 AATGATATGTA
**
31462987 AATGATATACA
1 AATGATATGTA
31462998 GAA-GCATA-GT-
1 -AATG-ATATGTA
*
31463008 AATGATATATA
1 AATGATATGTA
*
31463019 AATGTTATGTA
1 AATGATATGTA
*
31463030 AATGATATGTG
1 AATGATATGTA
*
31463041 AGTGATATG
1 AATGATATG
31463050 AATTTTCCAT
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
9 5 0.10
10 2 0.04
11 36 0.75
12 5 0.10
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.34
Consensus pattern (11 bp):
AATGATATGTA
Found at i:31463003 original size:32 final size:32
Alignment explanation
Indices: 31462948--31463022 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
31462938 ATGTGATTCA
** *
31462948 ATATGTAAATGATATGTGCAAGCACGGTAATG
1 ATATGTAAATGATATCAGCAAGCACAGTAATG
*
31462980 ATATGTAAATGATATACAG-AAGCATAGTAATG
1 ATATGTAAATGATAT-CAGCAAGCACAGTAATG
*
31463012 ATATATAAATG
1 ATATGTAAATG
31463023 TTATGTAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 36 0.97
33 1 0.03
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (32 bp):
ATATGTAAATGATATCAGCAAGCACAGTAATG
Found at i:31464031 original size:73 final size:73
Alignment explanation
Indices: 31463919--31464060 Score: 257
Period size: 73 Copynumber: 1.9 Consensus size: 73
31463909 ACTCTTCCAG
* *
31463919 TCTCATCTTCACTAAGGATTACCACCTAAGTCACCCTTTTGGTCTCTTCGTAGGCATACGGATAC
1 TCTCATCTTCACTAAGAATTACCACCTAAGTCACCCTTTTAGTCTCTTCGTAGGCATACGGATAC
31463984 CCTTCCGA
66 CCTTCCGA
*
31463992 TCTCATCTTCACTAAGAATTACCACCTAAGTCATCCTTTTAGTCTCTTCGTAGGCATACGGATAC
1 TCTCATCTTCACTAAGAATTACCACCTAAGTCACCCTTTTAGTCTCTTCGTAGGCATACGGATAC
31464057 CCTT
66 CCTT
31464061 TCAGTCTGAC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.33
Consensus pattern (73 bp):
TCTCATCTTCACTAAGAATTACCACCTAAGTCACCCTTTTAGTCTCTTCGTAGGCATACGGATAC
CCTTCCGA
Found at i:31465155 original size:23 final size:21
Alignment explanation
Indices: 31465127--31465172 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
31465117 TCAAAACAAA
31465127 AACAAAATAAAAATAGAAAACAT
1 AACAAAATAAAAAT-GAAAA-AT
* *
31465150 AACAAACTTAAAATGAAAAAT
1 AACAAAATAAAAATGAAAAAT
31465171 AA
1 AA
31465173 ACATGTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 5 0.24
23 12 0.57
ACGTcount: A:0.72, C:0.09, G:0.04, T:0.15
Consensus pattern (21 bp):
AACAAAATAAAAATGAAAAAT
Found at i:31466032 original size:16 final size:16
Alignment explanation
Indices: 31466011--31466045 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
31466001 CATTTCTGGC
31466011 TTATCAAGAAATTGGA
1 TTATCAAGAAATTGGA
31466027 TTATCAAGAAATTGGA
1 TTATCAAGAAATTGGA
31466043 TTA
1 TTA
31466046 AGGGTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (16 bp):
TTATCAAGAAATTGGA
Found at i:31468090 original size:53 final size:53
Alignment explanation
Indices: 31468010--31468115 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
31468000 CTTTCATTTA
*
31468010 GAATTAGTTGTAGCTCCTCTACCTTTAATTCTACTACTACATCTACAACTATG
1 GAATTAGTTGTACCTCCTCTACCTTTAATTCTACTACTACATCTACAACTATG
* *
31468063 GAATTGGTTGTACCTCCTCTACCTTTAATTCTACTGCTACATCTACAACTATG
1 GAATTAGTTGTACCTCCTCTACCTTTAATTCTACTACTACATCTACAACTATG
31468116 TAAATTTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.38
Consensus pattern (53 bp):
GAATTAGTTGTACCTCCTCTACCTTTAATTCTACTACTACATCTACAACTATG
Found at i:31469703 original size:5 final size:5
Alignment explanation
Indices: 31469695--31469720 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
31469685 AACATAACAT
31469695 AAGAG AAGAG AAGAG AAGAG AAGAG A
1 AAGAG AAGAG AAGAG AAGAG AAGAG A
31469721 TAAGACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:31473033 original size:2 final size:2
Alignment explanation
Indices: 31473026--31473058 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
31473016 TGAGATATGA
31473026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31473059 CACACACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31483820 original size:17 final size:17
Alignment explanation
Indices: 31483800--31483832 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31483790 ACCACTCGCT
*
31483800 ATTTCAATAGCATTTTC
1 ATTTCAATAACATTTTC
31483817 ATTTCAATAACATTTT
1 ATTTCAATAACATTTT
31483833 ACATATCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
ATTTCAATAACATTTTC
Found at i:31491202 original size:17 final size:17
Alignment explanation
Indices: 31491182--31491215 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31491172 ATCACTCGTT
*
31491182 ATTTCAATAGCATTTTC
1 ATTTCAATAACATTTTC
31491199 ATTTCAATAACATTTTC
1 ATTTCAATAACATTTTC
31491216 CACATCAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTTCAATAACATTTTC
Found at i:31495710 original size:12 final size:12
Alignment explanation
Indices: 31495693--31495717 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31495683 CATAAATAAT
31495693 TAATAGCATTCA
1 TAATAGCATTCA
31495705 TAATAGCATTCA
1 TAATAGCATTCA
31495717 T
1 T
31495718 CATACTAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGCATTCA
Found at i:31507834 original size:37 final size:37
Alignment explanation
Indices: 31507784--31508071 Score: 294
Period size: 37 Copynumber: 8.1 Consensus size: 37
31507774 GCATCTAAGA
*
31507784 ATTCGGGCTATGTGCCTAGCATGCTTTGTGCCGGTGT
1 ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* ** * * *
31507821 ATTCGGGCTATGTGCCTAACAAACTTAGTGCTGGTGG
1 ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
*
31507858 ATTTGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
1 ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* * * *
31507895 ATTCGGGCTATGTGCCTAACAGGCTTAGTACCGGTGA
1 ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* *
31507932 ATTCAGGATATGTG-CTAGCAGGCTTTGTGCCGGTGT
1 ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* * *
31507968 ATTC-GG----GT---TA--TGGCTTTGTGTCGGTGA
1 ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* *
31507995 ATTCGAGCTATGTGCCTAGCAGGCTTTGTGCCGGTGA
1 ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
* *
31508032 ATTCGGGCTTTGTGCCTAGCAGGCTTTTGTGCTGGT-T
1 ATTCGGGCTATGTGCCTAGCAGGC-TTTGTGCCGGTGT
31508069 ATT
1 ATT
31508072 GAAGAATGAG
Statistics
Matches: 206, Mismatches: 34, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
27 18 0.09
28 1 0.00
29 2 0.01
31 2 0.01
32 2 0.01
35 4 0.02
36 22 0.11
37 145 0.70
38 10 0.05
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.34
Consensus pattern (37 bp):
ATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGT
Found at i:31508006 original size:27 final size:27
Alignment explanation
Indices: 31507952--31508006 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
31507942 TGTGCTAGCA
* * *
31507952 GGCTTTGTGCCGGTGTATTCGGGTTAT
1 GGCTTTGTGCCGGTGAATTCGAGCTAT
*
31507979 GGCTTTGTGTCGGTGAATTCGAGCTAT
1 GGCTTTGTGCCGGTGAATTCGAGCTAT
31508006 G
1 G
31508007 TGCCTAGCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.11, C:0.15, G:0.36, T:0.38
Consensus pattern (27 bp):
GGCTTTGTGCCGGTGAATTCGAGCTAT
Found at i:31514211 original size:20 final size:19
Alignment explanation
Indices: 31514186--31514223 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
31514176 TATTTTCTAA
31514186 AAATAA-AATAAATACATTTG
1 AAATAATAA-AAATA-ATTTG
31514206 AAATAATAAAAATAATTT
1 AAATAATAAAAATAATTT
31514224 TATTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 11 0.65
21 2 0.12
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATAATAAAAATAATTTG
Found at i:31521953 original size:2 final size:2
Alignment explanation
Indices: 31521946--31522002 Score: 98
Period size: 2 Copynumber: 28.5 Consensus size: 2
31521936 TATGTAAGTA
31521946 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31521988 AT AT -T ACT AT AT AT A
1 AT AT AT A-T AT AT AT A
31522003 AAAGTAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 50 0.94
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31524722 original size:17 final size:17
Alignment explanation
Indices: 31524696--31524750 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
31524686 GAATTAAGTG
31524696 TTAA-TAATAAATTATA
1 TTAATTAATAAATTATA
31524712 TTAATTAATAAA-TATA
1 TTAATTAATAAATTATA
* * *
31524728 ATAGATTAA-ATATTATG
1 TTA-ATTAATAAATTATA
31524745 TTAATT
1 TTAATT
31524751 TACATTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 15 0.47
17 17 0.53
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (17 bp):
TTAATTAATAAATTATA
Found at i:31525800 original size:2 final size:2
Alignment explanation
Indices: 31525793--31525817 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31525783 CATCTCCATC
31525793 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
31525818 CGGATCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31526042 original size:13 final size:13
Alignment explanation
Indices: 31526024--31526057 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
31526014 ATTAATTAAC
31526024 AAATATAAATATA
1 AAATATAAATATA
**
31526037 AAATATTTATATA
1 AAATATAAATATA
31526050 AAATATAA
1 AAATATAA
31526058 TTTTTAAATA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AAATATAAATATA
Found at i:31526068 original size:18 final size:18
Alignment explanation
Indices: 31526028--31526073 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
31526018 ATTAACAAAT
*
31526028 ATAAATATAAAATATTTAT
1 ATAAA-ATAAAATATTTAA
* *
31526047 ATAAAATATAATTTTTAA
1 ATAAAATAAAATATTTAA
31526065 ATAAAATAA
1 ATAAAATAA
31526074 TATAAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAAAATAAAATATTTAA
Found at i:31526085 original size:44 final size:44
Alignment explanation
Indices: 31526021--31526136 Score: 112
Period size: 44 Copynumber: 2.7 Consensus size: 44
31526011 TATATTAATT
* * ** *
31526021 AACAAATATAAA-TATA-AAATATTTATATAAAATATAATTTTTA
1 AACAAA-ATAAATTAAATAAATATTTATATAAAACATAACATGTA
* * * *
31526064 AATAAAAT-AATATAAATAAATATTTATGTTAAACATCACATGTA
1 AACAAAATAAAT-TAAATAAATATTTATATAAAACATAACATGTA
31526108 AACAAAATAAATTAAATAAATATTTATAT
1 AACAAAATAAATTAAATAAATATTTATAT
31526137 TTATTTAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
41 2 0.03
42 2 0.03
43 8 0.14
44 43 0.74
45 3 0.05
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (44 bp):
AACAAAATAAATTAAATAAATATTTATATAAAACATAACATGTA
Found at i:31530956 original size:59 final size:58
Alignment explanation
Indices: 31530832--31531076 Score: 291
Period size: 59 Copynumber: 4.2 Consensus size: 58
31530822 TTAATATAAT
* * * * *
31530832 ATTTGGTACCTGAATTTGATA-TTTTTTCTTAATTTGATACCT-AA-TTTTTTTATTCA
1 ATTTGGTACTTGAACTTGACACTTTTTTC-TAATTTGGTACCTAAACTTTTTTTATCCA
* *
31530888 ATTTAGTACTTGAACTTGACACTTTTTTCTAATTTGGTACTTAAACTTTTTTTTATCCA
1 ATTTGGTACTTGAACTTGACACTTTTTTCTAATTTGGTACCTAAAC-TTTTTTTATCCA
* *
31530947 ATTTGGTACTTGAACTTGACACTTTTTCCTAATTTGGTACTTAAACTTTTTTTATCCA
1 ATTTGGTACTTGAACTTGACACTTTTTTCTAATTTGGTACCTAAACTTTTTTTATCCA
* * * *
31531005 ATTTAGTACTTGAACTTGGA-AATTTTTTCTAATTTGGTACCTAAGCCTTTTTTTAAATTCA
1 ATTTGGTACTTGAACTT-GACACTTTTTTCTAATTTGGTACCTAA-ACTTTTTTT--ATCCA
31531066 ATTTGGTACTT
1 ATTTGGTACTT
31531077 AAATTTATTA
Statistics
Matches: 165, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
56 28 0.17
57 9 0.05
58 49 0.30
59 65 0.39
61 14 0.08
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (58 bp):
ATTTGGTACTTGAACTTGACACTTTTTTCTAATTTGGTACCTAAACTTTTTTTATCCA
Found at i:31531020 original size:117 final size:117
Alignment explanation
Indices: 31530832--31531076 Score: 325
Period size: 117 Copynumber: 2.1 Consensus size: 117
31530822 TTAATATAAT
* * * * * *
31530832 ATTTGGTACCTGAATTTGATATTTTTTCTTAATTTGATACCTAATTTTTTTATTCAATTTAGTAC
1 ATTTGGTACTTGAACTTGACACTTTTTCCTAATTTGATACCTAATTTTTTTATCCAATTTAGTAC
* * *
31530897 TTGAACTT-GACACTTTTTTCTAATTTGGTACTTAA-ACTTTTTTT-TATCCA
66 TTGAACTTGGA-AATTTTTTCTAATTTGGTACCTAAGACTTTTTTTAAATCCA
* *
31530947 ATTTGGTACTTGAACTTGACACTTTTTCCTAATTTGGTACTTAAACTTTTTTTATCCAATTTAGT
1 ATTTGGTACTTGAACTTGACACTTTTTCCTAATTTGATACCT-AA-TTTTTTTATCCAATTTAGT
* *
31531012 ACTTGAACTTGGAAATTTTTTCTAATTTGGTACCTAAGCCTTTTTTTAAATTCA
64 ACTTGAACTTGGAAATTTTTTCTAATTTGGTACCTAAGACTTTTTTTAAATCCA
31531066 ATTTGGTACTT
1 ATTTGGTACTT
31531077 AAATTTATTA
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
115 35 0.31
116 2 0.02
117 50 0.45
118 10 0.09
119 15 0.13
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (117 bp):
ATTTGGTACTTGAACTTGACACTTTTTCCTAATTTGATACCTAATTTTTTTATCCAATTTAGTAC
TTGAACTTGGAAATTTTTTCTAATTTGGTACCTAAGACTTTTTTTAAATCCA
Found at i:31531255 original size:31 final size:31
Alignment explanation
Indices: 31531217--31531479 Score: 154
Period size: 31 Copynumber: 8.8 Consensus size: 31
31531207 ATTAAAAAAA
31531217 TTAGGTACCAAATTAGAAAAAAAAGTCAAGT
1 TTAGGTACCAAATTAGAAAAAAAAGTCAAGT
* ***
31531248 TTAGGTACCAAAAT-GAACCCCAAA---AAGT
1 TTAGGTACCAAATTAGAA-AAAAAAGTCAAGT
* * * **
31531276 TTAAGTGCCAACTTA-ATAAAAAGTGTCAAGT
1 TTAGGTACCAAATTAGA-AAAAAAAGTCAAGT
* *
31531307 TTAGGTACCAAATTAGGAAAAAGAGTCAAGT
1 TTAGGTACCAAATTAGAAAAAAAAGTCAAGT
* * ****
31531338 TCAGGTACCAAATTGGACCTCAAA---AAGT
1 TTAGGTACCAAATTAGAAAAAAAAGTCAAGT
* * *
31531366 TTAAGTACCAACTTA-ATAAAAAATGTCAAGT
1 TTAGGTACCAAATTAGA-AAAAAAAGTCAAGT
* ***
31531397 TTAGGTACCAAATTAGGAAAATGTGTCAAGT
1 TTAGGTACCAAATTAGAAAAAAAAGTCAAGT
* * *
31531428 TTAAGTACCAAATTGGACAAAAAA---AAGT
1 TTAGGTACCAAATTAGAAAAAAAAGTCAAGT
* *
31531456 TTAAGTATCAAATTAGAAAAAAAA
1 TTAGGTACCAAATTAGAAAAAAAA
31531480 AGTATCAAAT
Statistics
Matches: 170, Mismatches: 50, Indels: 27
0.69 0.20 0.11
Matches are distributed among these distances:
27 1 0.01
28 58 0.34
29 1 0.01
30 3 0.02
31 107 0.63
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (31 bp):
TTAGGTACCAAATTAGAAAAAAAAGTCAAGT
Found at i:31531461 original size:28 final size:27
Alignment explanation
Indices: 31531424--31531482 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
31531414 AAAATGTGTC
*
31531424 AAGTTTAAGTACCAAATTGGACAAAAAA
1 AAGTTTAAGTACCAAATTAGA-AAAAAA
*
31531452 AAGTTTAAGTATCAAATTAGAAAAAAA
1 AAGTTTAAGTACCAAATTAGAAAAAAA
31531479 AAGT
1 AAGT
31531483 ATCAAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.24
Consensus pattern (27 bp):
AAGTTTAAGTACCAAATTAGAAAAAAA
Found at i:31531478 original size:90 final size:90
Alignment explanation
Indices: 31531217--31531462 Score: 366
Period size: 90 Copynumber: 2.7 Consensus size: 90
31531207 ATTAAAAAAA
* * * * *
31531217 TTAGGTACCAAATTAGAAAAAAAAGTCAAGTTTAGGTACCAAAATGAACCCCAAAAAGTTTAAGT
1 TTAGGTACCAAATTAGGAAAAAGAGTCAAGTTTAGGTACCAAATTGGACCACAAAAAGTTTAAGT
* *
31531282 GCCAACTTAATAAAAAGTGTCAAGT
66 ACCAACTTAATAAAAAATGTCAAGT
* *
31531307 TTAGGTACCAAATTAGGAAAAAGAGTCAAGTTCAGGTACCAAATTGGACCTCAAAAAGTTTAAGT
1 TTAGGTACCAAATTAGGAAAAAGAGTCAAGTTTAGGTACCAAATTGGACCACAAAAAGTTTAAGT
31531372 ACCAACTTAATAAAAAATGTCAAGT
66 ACCAACTTAATAAAAAATGTCAAGT
* * * * *
31531397 TTAGGTACCAAATTAGGAAAATGTGTCAAGTTTAAGTACCAAATTGGACAAAAAAAAGTTTAAGT
1 TTAGGTACCAAATTAGGAAAAAGAGTCAAGTTTAGGTACCAAATTGGACCACAAAAAGTTTAAGT
31531462 A
66 A
31531463 TCAAATTAGA
Statistics
Matches: 141, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 141 1.00
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.25
Consensus pattern (90 bp):
TTAGGTACCAAATTAGGAAAAAGAGTCAAGTTTAGGTACCAAATTGGACCACAAAAAGTTTAAGT
ACCAACTTAATAAAAAATGTCAAGT
Found at i:31533740 original size:17 final size:17
Alignment explanation
Indices: 31533720--31533765 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
31533710 CAAAAACACA
*
31533720 AAAAATTAATAATTTAT
1 AAAAATTAATAATTAAT
*
31533737 AAAAATGTAA-AAATAAT
1 AAAAAT-TAATAATTAAT
31533754 AAAAA-TAATAAT
1 AAAAATTAATAAT
31533766 ATTTTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 3 0.12
16 2 0.08
17 16 0.67
18 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAAATTAATAATTAAT
Found at i:31534015 original size:26 final size:26
Alignment explanation
Indices: 31533986--31534040 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
31533976 AAGAAAAATC
*
31533986 GAAAATTAAATTGAAATGAGGTATTT
1 GAAAATTAAATTGAAATGAGGCATTT
*
31534012 GAAAATTAATTTGAAATGAGGCATTT
1 GAAAATTAAATTGAAATGAGGCATTT
31534038 GAA
1 GAA
31534041 CGGTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.20, T:0.33
Consensus pattern (26 bp):
GAAAATTAAATTGAAATGAGGCATTT
Done.